Daily Papers

Observing and analyzing children's social behaviors is crucial for the early diagnosis of Autism Spectrum Disorders (ASD). This work focuses on automatically detecting ASD using computer vision techniques and large language models (LLMs). Existing methods typically rely on supervised learning. However, the scarcity of ASD diagnostic datasets and the lack of interpretability in diagnostic results significantly limits its clinical application. To address these challenges, we introduce a novel unsupervised approach based on script-centric behavior understanding. Our pipeline converts video content into scripts that describe the behavior of characters, leveraging the generalizability of large language models to detect ASD in a zero-shot or few-shot manner. Specifically, we propose a scripts transcription module for multimodal behavior data textualization and a domain prompts module to bridge LLMs. Our method achieves an accuracy of 92.00\% in diagnosing ASD in children with an average age of 24 months, surpassing the performance of supervised learning methods by 3.58\% absolutely. Extensive experiments confirm the effectiveness of our approach and suggest its potential for advancing ASD research through LLMs.

We present GlotScript, an open resource and tool for low resource writing system identification. GlotScript-R is a resource that provides the attested writing systems for more than 7,000 languages. It is compiled by aggregating information from existing writing system resources. GlotScript-T is a writing system identification tool that covers all 161 Unicode 15.0 scripts. For an input text, it returns its script distribution where scripts are identified by ISO 15924 codes. We also present two use cases for GlotScript. First, we demonstrate that GlotScript supports cleaning multilingual corpora such as mC4 and OSCAR. Second, we analyze the tokenization of a number of language models such as GPT-4 using GlotScript and provide insights on the coverage of low resource scripts and languages by each language model. We hope that GlotScript will become a useful resource for work on low resource languages in the NLP community. GlotScript-R and GlotScript-T are available at https://github.com/cisnlp/GlotScript.

The world's more than 7000 languages are written in at least 293 scripts. Due to various reasons, many closely related languages use different scripts, which poses a difficulty for multilingual pretrained language models (mPLMs) in learning crosslingual knowledge through lexical overlap. As a consequence, mPLMs are faced with a script barrier: representations from different scripts are located in different subspaces, which can result in crosslingual transfer involving languages of different scripts performing suboptimally. To address this problem, we propose TransliCo, a framework that optimizes the Transliteration Contrastive Modeling (TCM) objective to fine-tune an mPLM by contrasting sentences in its training data and their transliterations in a unified script (in our case Latin), which enhances uniformity in the representation space for different scripts. Using Glot500-m, an mPLM pretrained on over 500 languages, as our source model, we fine-tune it on a small portion (5%) of its training data, and refer to the resulting model as Furina. We show that Furina not only better aligns representations from distinct scripts but also outperforms the original Glot500-m on various zero-shot crosslingual transfer tasks. Additionally, we achieve consistent improvement in a case study on the Indic group where the languages exhibit areal features but use different scripts. We make our code and models publicly available.

Byte Pair Encoding (BPE) tokenizers, widely used in Large Language Models, face challenges in multilingual settings, including penalization of non-Western scripts and the creation of tokens with partial UTF-8 sequences. Pretokenization, often reliant on complex regular expressions, can also introduce fragility and unexpected edge cases. We propose SCRIPT (Script Category Representation in PreTokenization), a novel encoding scheme that bypasses UTF-8 byte conversion by using initial tokens based on Unicode script and category properties. This approach enables a simple, rule-based pretokenization strategy that respects script boundaries, offering a robust alternative to pretokenization strategies based on regular expressions. We also introduce and validate a constrained BPE merging strategy that enforces character integrity, applicable to both SCRIPT-BPE and byte-based BPE. Our experiments demonstrate that SCRIPT-BPE achieves competitive compression while eliminating encoding-based penalties for non-Latin-script languages.

Medical research generates a large number of publications with the PubMed database already containing >35 million research articles. Integration of the knowledge scattered across this large body of literature could provide key insights into physiological mechanisms and disease processes leading to novel medical interventions. However, it is a great challenge for researchers to utilize this information in full since the scale and complexity of the data greatly surpasses human processing abilities. This becomes especially problematic in cases of extreme urgency like the COVID-19 pandemic. Automated text mining can help extract and connect information from the large body of medical research articles. The first step in text mining is typically the identification of specific classes of keywords (e.g., all protein or disease names), so called Named Entity Recognition (NER). Here we present an end-to-end pipeline for NER of typical entities found in medical research articles, including diseases, cells, chemicals, genes/proteins, and species. The pipeline can access and process large medical research article collections (PubMed, CORD-19) or raw text and incorporates a series of deep learning models fine-tuned on the HUNER corpora collection. In addition, the pipeline can perform dictionary-based NER related to COVID-19 and other medical topics. Users can also load their own NER models and dictionaries to include additional entities. The output consists of publication-ready ranked lists and graphs of detected entities and files containing the annotated texts. An associated script allows rapid inspection of the results for specific entities of interest. As model use cases, the pipeline was deployed on two collections of autophagy-related abstracts from PubMed and on the CORD19 dataset, a collection of 764 398 research article abstracts related to COVID-19.

Storytelling is the lifeline of the entertainment industry -- movies, TV shows, and stand-up comedies, all need stories. A good and gripping script is the lifeline of storytelling and demands creativity and resource investment. Good scriptwriters are rare to find and often work under severe time pressure. Consequently, entertainment media are actively looking for automation. In this paper, we present an AI-based script-writing workbench called KUROSAWA which addresses the tasks of plot generation and script generation. Plot generation aims to generate a coherent and creative plot (600-800 words) given a prompt (15-40 words). Script generation, on the other hand, generates a scene (200-500 words) in a screenplay format from a brief description (15-40 words). Kurosawa needs data to train. We use a 4-act structure of storytelling to annotate the plot dataset manually. We create a dataset of 1000 manually annotated plots and their corresponding prompts/storylines and a gold-standard dataset of 1000 scenes with four main elements -- scene headings, action lines, dialogues, and character names -- tagged individually. We fine-tune GPT-3 with the above datasets to generate plots and scenes. These plots and scenes are first evaluated and then used by the scriptwriters of a large and famous media platform ErosNow. We release the annotated datasets and the models trained on these datasets as a working benchmark for automatic movie plot and script generation.

Automatically generating scripts (i.e. sequences of key steps described in text) from video demonstrations and reasoning about the subsequent steps are crucial to the modern AI virtual assistants to guide humans to complete everyday tasks, especially unfamiliar ones. However, current methods for generative script learning rely heavily on well-structured preceding steps described in text and/or images or are limited to a certain domain, resulting in a disparity with real-world user scenarios. To address these limitations, we present a new benchmark challenge -- MultiScript, with two new tasks on task-oriented multimodal script learning: (1) multimodal script generation, and (2) subsequent step prediction. For both tasks, the input consists of a target task name and a video illustrating what has been done to complete the target task, and the expected output is (1) a sequence of structured step descriptions in text based on the demonstration video, and (2) a single text description for the subsequent step, respectively. Built from WikiHow, MultiScript covers multimodal scripts in videos and text descriptions for over 6,655 human everyday tasks across 19 diverse domains. To establish baseline performance on MultiScript, we propose two knowledge-guided multimodal generative frameworks that incorporate the task-related knowledge prompted from large language models such as Vicuna. Experimental results show that our proposed approaches significantly improve over the competitive baselines.

In this paper, we focus on generating a synthetic question answering (QA) dataset using an adapted Translate-Align-Retrieve method. Using this method, we created the largest Serbian QA dataset of more than 87K samples, which we name SQuAD-sr. To acknowledge the script duality in Serbian, we generated both Cyrillic and Latin versions of the dataset. We investigate the dataset quality and use it to fine-tune several pre-trained QA models. Best results were obtained by fine-tuning the BERTi\'c model on our Latin SQuAD-sr dataset, achieving 73.91% Exact Match and 82.97% F1 score on the benchmark XQuAD dataset, which we translated into Serbian for the purpose of evaluation. The results show that our model exceeds zero-shot baselines, but fails to go beyond human performance. We note the advantage of using a monolingual pre-trained model over multilingual, as well as the performance increase gained by using Latin over Cyrillic. By performing additional analysis, we show that questions about numeric values or dates are more likely to be answered correctly than other types of questions. Finally, we conclude that SQuAD-sr is of sufficient quality for fine-tuning a Serbian QA model, in the absence of a manually crafted and annotated dataset.

We introduce Nile-Chat-4B, 3x4B-A6B, and 12B, a collection of LLMs for Egyptian dialect, uniquely designed to understand and generate texts written in both Arabic and Latin scripts. Specifically, with Nile-Chat-3x4B-A6B, we introduce a novel language adaptation approach by leveraging the Branch-Train-MiX strategy to merge script-specialized experts, into a single MoE model. Our Nile-Chat models significantly outperform leading multilingual and Arabic LLMs, such as LLaMa, Jais, and ALLaM, on our newly introduced Egyptian evaluation benchmarks, which span both understanding and generative tasks. Notably, our 12B model yields a 14.4% performance gain over Qwen2.5-14B-Instruct on Latin-script benchmarks. All our resources are publicly available. We believe this work presents a comprehensive methodology for adapting LLMs to dual-script languages, addressing an often overlooked aspect in modern LLM development.

Movie screenplay summarization is challenging, as it requires an understanding of long input contexts and various elements unique to movies. Large language models have shown significant advancements in document summarization, but they often struggle with processing long input contexts. Furthermore, while television transcripts have received attention in recent studies, movie screenplay summarization remains underexplored. To stimulate research in this area, we present a new dataset, MovieSum, for abstractive summarization of movie screenplays. This dataset comprises 2200 movie screenplays accompanied by their Wikipedia plot summaries. We manually formatted the movie screenplays to represent their structural elements. Compared to existing datasets, MovieSum possesses several distinctive features: (1) It includes movie screenplays, which are longer than scripts of TV episodes. (2) It is twice the size of previous movie screenplay datasets. (3) It provides metadata with IMDb IDs to facilitate access to additional external knowledge. We also show the results of recently released large language models applied to summarization on our dataset to provide a detailed baseline.

We report upon the results of a research and prototype building project Worldly~OCR dedicated to developing new, more accurate image-to-text conversion software for several languages and writing systems. These include the cursive scripts Farsi and Pashto, and Latin cursive scripts. We also describe approaches geared towards Traditional Chinese, which is non-cursive, but features an extremely large character set of 65,000 characters. Our methodology is based on Machine Learning, especially Deep Learning, and Data Science, and is directed towards vast quantities of original documents, exceeding a billion pages. The target audience of this paper is a general audience with interest in Digital Humanities or in retrieval of accurate full-text and metadata from digital images.

The wide accessibility of social media has provided linguistically under-represented communities with an extraordinary opportunity to create content in their native languages. This, however, comes with certain challenges in script normalization, particularly where the speakers of a language in a bilingual community rely on another script or orthography to write their native language. This paper addresses the problem of script normalization for several such languages that are mainly written in a Perso-Arabic script. Using synthetic data with various levels of noise and a transformer-based model, we demonstrate that the problem can be effectively remediated. We conduct a small-scale evaluation of real data as well. Our experiments indicate that script normalization is also beneficial to improve the performance of downstream tasks such as machine translation and language identification.

This paper describes the development of a new benchmark for machine translation that provides training and test data for thousands of language pairs covering over 500 languages and tools for creating state-of-the-art translation models from that collection. The main goal is to trigger the development of open translation tools and models with a much broader coverage of the World's languages. Using the package it is possible to work on realistic low-resource scenarios avoiding artificially reduced setups that are common when demonstrating zero-shot or few-shot learning. For the first time, this package provides a comprehensive collection of diverse data sets in hundreds of languages with systematic language and script annotation and data splits to extend the narrow coverage of existing benchmarks. Together with the data release, we also provide a growing number of pre-trained baseline models for individual language pairs and selected language groups.

Text detection in the wild is a well-known problem that becomes more challenging while handling multiple scripts. In the last decade, some scripts have gained the attention of the research community and achieved good detection performance. However, many scripts are low-resourced for training deep learning-based scene text detectors. It raises a critical question: Is there a need for separate training for new scripts? It is an unexplored query in the field of scene text detection. This paper acknowledges this problem and proposes a solution to detect scripts not present during training. In this work, the analysis has been performed to understand cross-script text detection, i.e., trained on one and tested on another. We found that the identical nature of text annotation (word-level/line-level) is crucial for better cross-script text detection. The different nature of text annotation between scripts degrades cross-script text detection performance. Additionally, for unseen script detection, the proposed solution utilizes vector embedding to map the stroke information of text corresponding to the script category. The proposed method is validated with a well-known multi-lingual scene text dataset under a zero-shot setting. The results show the potential of the proposed method for unseen script detection in natural images.

The increasing interest in developing Artificial Intelligence applications in the medical domain, suffers from the lack of high-quality dataset, mainly due to privacy-related issues. Moreover, the recent rising of Multimodal Large Language Models (MLLM) leads to a need for multimodal medical datasets, where clinical reports and findings are attached to the corresponding CT or MR scans. This paper illustrates the entire workflow for building the data set MedPix 2.0. Starting from the well-known multimodal dataset MedPix\textregistered, mainly used by physicians, nurses and healthcare students for Continuing Medical Education purposes, a semi-automatic pipeline was developed to extract visual and textual data followed by a manual curing procedure where noisy samples were removed, thus creating a MongoDB database. Along with the dataset, we developed a GUI aimed at navigating efficiently the MongoDB instance, and obtaining the raw data that can be easily used for training and/or fine-tuning MLLMs. To enforce this point, we also propose a CLIP-based model trained on MedPix 2.0 for scan classification tasks.

With the evolution of Large Language Models (LLMs) we can solve increasingly more complex NLP tasks across various domains, including spreadsheets. This work investigates whether LLMs can generate code (Excel OfficeScripts, a TypeScript API for executing many tasks in Excel) that solves Excel specific tasks provided via natural language user instructions. To do so we introduce a new large-scale benchmark, InstructExcel, created by leveraging the 'Automate' feature in Excel to automatically generate OfficeScripts from users' actions. Our benchmark includes over 10k samples covering 170+ Excel operations across 2,000 publicly available Excel spreadsheets. Experiments across various zero-shot and few-shot settings show that InstructExcel is a hard benchmark for state of the art models like GPT-4. We observe that (1) using GPT-4 over GPT-3.5, (2) providing more in-context examples, and (3) dynamic prompting can help improve performance on this benchmark.

This study addresses the challenge of extending Large Language Models (LLMs) to non-English languages, specifically those using non-Latin scripts. We propose an innovative approach that utilizes the romanized form of text as an interface for LLMs, hypothesizing that its frequent informal use and shared tokens with English enhance cross-lingual alignment. Focusing on Hindi, we demonstrate through Hindi-to-English translation and sentiment analysis tasks that romanized text not only significantly improves inference efficiency due to its lower fertility compared to native text but also achieves competitive performance with limited pre-training. Additionally, our novel multi-script prompting approach, which combines romanized and native texts, shows promise in further enhancing task performance. These findings suggest the potential of romanization in bridging the language gap for LLM applications, with future work aimed at expanding this approach to more languages and tasks.

Background: Clinical documentation represents a significant burden for healthcare providers, with physicians spending up to 2 hours daily on administrative tasks. Recent advances in large language models (LLMs) offer promising solutions, but privacy concerns and computational requirements limit their adoption in healthcare settings. Objective: To develop and evaluate a privacy-preserving, on-device medical transcription system using a fine-tuned Llama 3.2 1B model capable of generating structured medical notes from medical transcriptions while maintaining complete data sovereignty entirely in the browser. Methods: We fine-tuned a Llama 3.2 1B model using Parameter-Efficient Fine-Tuning (PEFT) with LoRA on 1,500 synthetic medical transcription-to-structured note pairs. The model was evaluated against the base Llama 3.2 1B on two datasets: 100 endocrinology transcripts and 140 modified ACI benchmark cases. Evaluation employed both statistical metrics (ROUGE, BERTScore, BLEURT) and LLM-as-judge assessments across multiple clinical quality dimensions. Results: The fine-tuned OnDevice model demonstrated substantial improvements over the base model. On the ACI benchmark, ROUGE-1 scores increased from 0.346 to 0.496, while BERTScore F1 improved from 0.832 to 0.866. Clinical quality assessments showed marked reduction in major hallucinations (from 85 to 35 cases) and enhanced factual correctness (2.81 to 3.54 on 5-point scale). Similar improvements were observed on the internal evaluation dataset, with composite scores increasing from 3.13 to 4.43 (+41.5%). Conclusions: Fine-tuning compact LLMs for medical transcription yields clinically meaningful improvements while enabling complete on-device browser deployment. This approach addresses key barriers to AI adoption in healthcare: privacy preservation, cost reduction, and accessibility for resource-constrained environments.

RNA plays a pivotal role in translating genetic instructions into functional outcomes, underscoring its importance in biological processes and disease mechanisms. Despite the emergence of numerous deep learning approaches for RNA, particularly universal RNA language models, there remains a significant lack of standardized benchmarks to assess the effectiveness of these methods. In this study, we introduce the first comprehensive RNA benchmark BEACON (BEnchmArk for COmprehensive RNA Task and Language Models). First, BEACON comprises 13 distinct tasks derived from extensive previous work covering structural analysis, functional studies, and engineering applications, enabling a comprehensive assessment of the performance of methods on various RNA understanding tasks. Second, we examine a range of models, including traditional approaches like CNNs, as well as advanced RNA foundation models based on language models, offering valuable insights into the task-specific performances of these models. Third, we investigate the vital RNA language model components from the tokenizer and positional encoding aspects. Notably, our findings emphasize the superiority of single nucleotide tokenization and the effectiveness of Attention with Linear Biases (ALiBi) over traditional positional encoding methods. Based on these insights, a simple yet strong baseline called BEACON-B is proposed, which can achieve outstanding performance with limited data and computational resources. The datasets and source code of our benchmark are available at https://github.com/terry-r123/RNABenchmark.

Prompt engineering is a challenging and important task due to the high sensitivity of Large Language Models (LLMs) to the given prompt and the inherent ambiguity of a textual task instruction. Automatic prompt engineering is essential to achieve optimized performance from LLMs. Recent studies have demonstrated the capabilities of LLMs to automatically conduct prompt engineering by employing a meta-prompt that incorporates the outcomes of the last trials and proposes an improved prompt. However, this requires a high-quality benchmark to compare different prompts, which is difficult and expensive to acquire in many real-world use cases. In this work, we introduce a new method for automatic prompt engineering, using a calibration process that iteratively refines the prompt to the user intent. During the optimization process, the system jointly generates synthetic data of boundary use cases and optimizes the prompt according to the generated dataset. We demonstrate the effectiveness of our method with respect to strong proprietary models on real-world tasks such as moderation and generation. Our method outperforms state-of-the-art methods with a limited number of annotated samples. Furthermore, we validate the advantages of each one of the system's key components. Our system is built in a modular way, facilitating easy adaptation to other tasks. The code is available https://github.com/Eladlev/AutoPrompt{here}.

Subtitling plays a crucial role in enhancing the accessibility of audiovisual content and encompasses three primary subtasks: translating spoken dialogue, segmenting translations into concise textual units, and estimating timestamps that govern their on-screen duration. Past attempts to automate this process rely, to varying degrees, on automatic transcripts, employed diversely for the three subtasks. In response to the acknowledged limitations associated with this reliance on transcripts, recent research has shifted towards transcription-free solutions for translation and segmentation, leaving the direct generation of timestamps as uncharted territory. To fill this gap, we introduce the first direct model capable of producing automatic subtitles, entirely eliminating any dependence on intermediate transcripts also for timestamp prediction. Experimental results, backed by manual evaluation, showcase our solution's new state-of-the-art performance across multiple language pairs and diverse conditions.

The development of large language models tailored for handling patients' clinical notes is often hindered by the limited accessibility and usability of these notes due to strict privacy regulations. To address these challenges, we first create synthetic large-scale clinical notes using publicly available case reports extracted from biomedical literature. We then use these synthetic notes to train our specialized clinical large language model, Asclepius. While Asclepius is trained on synthetic data, we assess its potential performance in real-world applications by evaluating it using real clinical notes. We benchmark Asclepius against several other large language models, including GPT-3.5-turbo and other open-source alternatives. To further validate our approach using synthetic notes, we also compare Asclepius with its variants trained on real clinical notes. Our findings convincingly demonstrate that synthetic clinical notes can serve as viable substitutes for real ones when constructing high-performing clinical language models. This conclusion is supported by detailed evaluations conducted by both GPT-4 and medical professionals. All resources including weights, codes, and data used in the development of Asclepius are made publicly accessible for future research.

Audio Description (AD) provides linguistic descriptions of movies and allows visually impaired people to follow a movie along with their peers. Such descriptions are by design mainly visual and thus naturally form an interesting data source for computer vision and computational linguistics. In this work we propose a novel dataset which contains transcribed ADs, which are temporally aligned to full length movies. In addition we also collected and aligned movie scripts used in prior work and compare the two sources of descriptions. In total the Large Scale Movie Description Challenge (LSMDC) contains a parallel corpus of 118,114 sentences and video clips from 202 movies. First we characterize the dataset by benchmarking different approaches for generating video descriptions. Comparing ADs to scripts, we find that ADs are indeed more visual and describe precisely what is shown rather than what should happen according to the scripts created prior to movie production. Furthermore, we present and compare the results of several teams who participated in a challenge organized in the context of the workshop "Describing and Understanding Video & The Large Scale Movie Description Challenge (LSMDC)", at ICCV 2015.

The ability to generate natural language sequences from source code snippets has a variety of applications such as code summarization, documentation, and retrieval. Sequence-to-sequence (seq2seq) models, adopted from neural machine translation (NMT), have achieved state-of-the-art performance on these tasks by treating source code as a sequence of tokens. We present {scriptsize CODE2SEQ}: an alternative approach that leverages the syntactic structure of programming languages to better encode source code. Our model represents a code snippet as the set of compositional paths in its abstract syntax tree (AST) and uses attention to select the relevant paths while decoding. We demonstrate the effectiveness of our approach for two tasks, two programming languages, and four datasets of up to 16M examples. Our model significantly outperforms previous models that were specifically designed for programming languages, as well as state-of-the-art NMT models. An interactive online demo of our model is available at http://code2seq.org. Our code, data and trained models are available at http://github.com/tech-srl/code2seq.

Weak supervision is a popular framework for overcoming the labeled data bottleneck: the need to obtain labels for training data. In weak supervision, multiple noisy-but-cheap sources are used to provide guesses of the label and are aggregated to produce high-quality pseudolabels. These sources are often expressed as small programs written by domain experts -- and so are expensive to obtain. Instead, we argue for using code-generation models to act as coding assistants for crafting weak supervision sources. We study prompting strategies to maximize the quality of the generated sources, settling on a multi-tier strategy that incorporates multiple types of information. We explore how to best combine hand-written and generated sources. Using these insights, we introduce ScriptoriumWS, a weak supervision system that, when compared to hand-crafted sources, maintains accuracy and greatly improves coverage.

The development of speech technologies for languages with limited digital representation poses significant challenges, primarily due to the scarcity of available data. This issue is exacerbated in the era of large, data-intensive models. Recent research has underscored the potential of leveraging weak supervision to augment the pool of available data. In this study, we compile an 800-hour corpus of Modern Greek from podcasts and employ Whisper large-v3 to generate silver transcriptions. This corpus is utilized to fine-tune our models, aiming to assess the efficacy of this approach in enhancing ASR performance. Our analysis spans 16 distinct podcast domains, alongside evaluations on established datasets for Modern Greek. The findings indicate consistent WER improvements, correlating with increases in both data volume and model size. Our study confirms that assembling large, weakly supervised corpora serves as a cost-effective strategy for advancing speech technologies in under-resourced languages.

We introduce SentEval, a toolkit for evaluating the quality of universal sentence representations. SentEval encompasses a variety of tasks, including binary and multi-class classification, natural language inference and sentence similarity. The set of tasks was selected based on what appears to be the community consensus regarding the appropriate evaluations for universal sentence representations. The toolkit comes with scripts to download and preprocess datasets, and an easy interface to evaluate sentence encoders. The aim is to provide a fairer, less cumbersome and more centralized way for evaluating sentence representations.

Large language models excel at interpreting complex natural language instructions, enabling them to perform a wide range of tasks. In the life sciences, single-cell RNA sequencing (scRNA-seq) data serves as the "language of cellular biology", capturing intricate gene expression patterns at the single-cell level. However, interacting with this "language" through conventional tools is often inefficient and unintuitive, posing challenges for researchers. To address these limitations, we present InstructCell, a multi-modal AI copilot that leverages natural language as a medium for more direct and flexible single-cell analysis. We construct a comprehensive multi-modal instruction dataset that pairs text-based instructions with scRNA-seq profiles from diverse tissues and species. Building on this, we develop a multi-modal cell language architecture capable of simultaneously interpreting and processing both modalities. InstructCell empowers researchers to accomplish critical tasks-such as cell type annotation, conditional pseudo-cell generation, and drug sensitivity prediction-using straightforward natural language commands. Extensive evaluations demonstrate that InstructCell consistently meets or exceeds the performance of existing single-cell foundation models, while adapting to diverse experimental conditions. More importantly, InstructCell provides an accessible and intuitive tool for exploring complex single-cell data, lowering technical barriers and enabling deeper biological insights.

The task of Grammatical Error Correction (GEC) has received remarkable attention with wide applications in Natural Language Processing (NLP) in recent years. While one of the key principles of GEC is to keep the correct parts unchanged and avoid over-correction, previous sequence-to-sequence (seq2seq) models generate results from scratch, which are not guaranteed to follow the original sentence structure and may suffer from the over-correction problem. In the meantime, the recently proposed sequence tagging models can overcome the over-correction problem by only generating edit operations, but are conditioned on human designed language-specific tagging labels. In this paper, we combine the pros and alleviate the cons of both models by proposing a novel Sequence-to-Action~(S2A) module. The S2A module jointly takes the source and target sentences as input, and is able to automatically generate a token-level action sequence before predicting each token, where each action is generated from three choices named SKIP, COPY and GENerate. Then the actions are fused with the basic seq2seq framework to provide final predictions. We conduct experiments on the benchmark datasets of both English and Chinese GEC tasks. Our model consistently outperforms the seq2seq baselines, while being able to significantly alleviate the over-correction problem as well as holding better generality and diversity in the generation results compared to the sequence tagging models.

In the English speech-to-text (STT) machine learning task, acoustic models are conventionally trained on uncased Latin characters, and any necessary orthography (such as capitalization, punctuation, and denormalization of non-standard words) is imputed by separate post-processing models. This adds complexity and limits performance, as many formatting tasks benefit from semantic information present in the acoustic signal but absent in transcription. Here we propose a new STT task: end-to-end neural transcription with fully formatted text for target labels. We present baseline Conformer-based models trained on a corpus of 5,000 hours of professionally transcribed earnings calls, achieving a CER of 1.7. As a contribution to the STT research community, we release the corpus free for non-commercial use at https://datasets.kensho.com/datasets/scribe.

Large parallel corpora that are automatically obtained from the web, documents or elsewhere often exhibit many corrupted parts that are bound to negatively affect the quality of the systems and models that learn from these corpora. This paper describes frequent problems found in data and such data affects neural machine translation systems, as well as how to identify and deal with them. The solutions are summarised in a set of scripts that remove problematic sentences from input corpora.

Pre-trained language models like ChatGPT have significantly improved code generation. As these models scale up, there is an increasing need for the output to handle more intricate tasks. Moreover, in bioinformatics, generating functional programs poses additional notable challenges due to the amount of domain knowledge, the need for complicated data operations, and intricate functional dependencies between the operations. Here, we present BioCoder, a benchmark developed to evaluate existing pre-trained models in generating bioinformatics code. In relation to function-code generation, BioCoder covers potential package dependencies, class declarations, and global variables. It incorporates 1026 functions and 1243 methods in Python and Java from GitHub and 253 examples from the Rosalind Project. BioCoder incorporates a fuzz-testing framework for evaluation, and we have applied it to evaluate many models including InCoder, CodeGen, CodeGen2, SantaCoder, StarCoder, StarCoder+, InstructCodeT5+, and ChatGPT. Our detailed analysis of these models emphasizes the importance of domain knowledge, pragmatic code generation, and contextual understanding. Our dataset, benchmark, Docker images, and scripts required for testing are all available at https://github.com/gersteinlab/biocoder.

Drug discovery typically consists of multiple steps, including identifying a target protein key to a disease's etiology, validating that interacting with this target could prevent symptoms or cure the disease, discovering a small molecule or biologic therapeutic to interact with it, and optimizing the candidate molecule through a complex landscape of required properties. Drug discovery related tasks often involve prediction and generation while considering multiple entities that potentially interact, which poses a challenge for typical AI models. For this purpose we present MAMMAL - Molecular Aligned Multi-Modal Architecture and Language - a method that we applied to create a versatile multi-task foundation model ibm/biomed.omics.bl.sm.ma-ted-458m that learns from large-scale biological datasets (2 billion samples) across diverse modalities, including proteins, small molecules, and genes. We introduce a prompt syntax that supports a wide range of classification, regression, and generation tasks. It allows combining different modalities and entity types as inputs and/or outputs. Our model handles combinations of tokens and scalars and enables the generation of small molecules and proteins, property prediction, and transcriptomic lab test predictions. We evaluated the model on 11 diverse downstream tasks spanning different steps within a typical drug discovery pipeline, where it reaches new SOTA in 9 tasks and is comparable to SOTA in 2 tasks. This performance is achieved while using a unified architecture serving all tasks, in contrast to the original SOTA performance achieved using tailored architectures. The model code and pretrained weights are publicly available at https://github.com/BiomedSciAI/biomed-multi-alignment and https://huggingface.co/ibm/biomed.omics.bl.sm.ma-ted-458m.

Movie Audio Description (AD) aims to narrate visual content during dialogue-free segments, particularly benefiting blind and visually impaired (BVI) audiences. Compared with general video captioning, AD demands plot-relevant narration with explicit character name references, posing unique challenges in movie understanding.To identify active main characters and focus on storyline-relevant regions, we propose FocusedAD, a novel framework that delivers character-centric movie audio descriptions. It includes: (i) a Character Perception Module(CPM) for tracking character regions and linking them to names; (ii) a Dynamic Prior Module(DPM) that injects contextual cues from prior ADs and subtitles via learnable soft prompts; and (iii) a Focused Caption Module(FCM) that generates narrations enriched with plot-relevant details and named characters. To overcome limitations in character identification, we also introduce an automated pipeline for building character query banks. FocusedAD achieves state-of-the-art performance on multiple benchmarks, including strong zero-shot results on MAD-eval-Named and our newly proposed Cinepile-AD dataset. Code and data will be released at https://github.com/Thorin215/FocusedAD .

We present the first sizeable corpus of Thai speech emotion recognition, THAI-SER, containing 41 hours and 36 minutes (27,854 utterances) from 100 recordings made in different recording environments: Zoom and two studio setups. The recordings contain both scripted and improvised sessions, acted by 200 professional actors (112 females and 88 males, aged 18 to 55) and were directed by professional directors. There are five primary emotions: neutral, angry, happy, sad, and frustrated, assigned to the actors when recording utterances. The utterances are annotated with an emotional category using crowdsourcing. To control the annotation process's quality, we also design an extensive filtering and quality control scheme to ensure that the majority agreement score remains above 0.71. We evaluate our annotated corpus using two metrics: inter-annotator reliability and human recognition accuracy. Inter-annotator reliability score was calculated using Krippendorff's alpha, where our corpus, after filtering, achieved an alpha score of 0.692, higher than a recommendation of 0.667. For human recognition accuracy, our corpus scored up to 0.772 post-filtering. We also provide the results of the model trained on the corpus evaluated on both in-corpus and cross-corpus setups. The corpus is publicly available under a Creative Commons BY-SA 4.0, as well as our codes for the experiments.

Multilingual LLMs have achieved remarkable benchmark performance, but we find they continue to underperform on non-Latin script languages across contemporary LLM families. This discrepancy arises from the fact that LLMs are pretrained with orthographic scripts, which are dominated by Latin characters that obscure their shared phonology with non-Latin scripts. We propose leveraging phonemic transcriptions as complementary signals to induce script-invariant representations. Our study demonstrates that integrating phonemic signals improves performance across both non-Latin and Latin languages, with a particularly significant impact on closing the performance gap between the two. Through detailed experiments, we show that phonemic and orthographic scripts retrieve distinct examples for in-context learning (ICL). This motivates our proposed Mixed-ICL retrieval strategy, where further aggregation leads to our significant performance improvements for both Latin script languages (up to 12.6%) and non-Latin script languages (up to 15.1%) compared to randomized ICL retrieval.

In this article we describe an efficient approach to guiding language model text generation with regular expressions and context-free grammars. Our approach adds little to no overhead to the token sequence generation process, and makes guided generation feasible in practice. An implementation is provided in the open source Python library Outlines.

Accessing medical literature is difficult for laypeople as the content is written for specialists and contains medical jargon. Automated text simplification methods offer a potential means to address this issue. In this work, we propose a summarize-then-simplify two-stage strategy, which we call NapSS, identifying the relevant content to simplify while ensuring that the original narrative flow is preserved. In this approach, we first generate reference summaries via sentence matching between the original and the simplified abstracts. These summaries are then used to train an extractive summarizer, learning the most relevant content to be simplified. Then, to ensure the narrative consistency of the simplified text, we synthesize auxiliary narrative prompts combining key phrases derived from the syntactical analyses of the original text. Our model achieves results significantly better than the seq2seq baseline on an English medical corpus, yielding 3%~4% absolute improvements in terms of lexical similarity, and providing a further 1.1% improvement of SARI score when combined with the baseline. We also highlight shortcomings of existing evaluation methods, and introduce new metrics that take into account both lexical and high-level semantic similarity. A human evaluation conducted on a random sample of the test set further establishes the effectiveness of the proposed approach. Codes and models are released here: https://github.com/LuJunru/NapSS.

Large language models (LLM) have demonstrated remarkable abilities in generating natural language, understanding user instruction, and mimicking human language use. These capabilities have garnered considerable interest in applications such as role-playing. However, the process of collecting individual role scripts (or profiles) data and manually evaluating the performance can be costly. We introduce a framework that uses prompts to leverage the state-of-the-art (SOTA) LLMs to construct role-playing dialogue datasets and evaluate the role-playing performance. Additionally, we employ recall-oriented evaluation Rouge-L metric to support the result of the LLM evaluator.

This paper focuses on developing translation models and related applications for 36 Indian languages, including Assamese, Awadhi, Bengali, Bhojpuri, Braj, Bodo, Dogri, English, Konkani, Gondi, Gujarati, Hindi, Hinglish, Ho, Kannada, Kangri, Kashmiri (Arabic and Devanagari), Khasi, Mizo, Magahi, Maithili, Malayalam, Marathi, Manipuri (Bengali and Meitei), Nepali, Oriya, Punjabi, Sanskrit, Santali, Sinhala, Sindhi (Arabic and Devanagari), Tamil, Tulu, Telugu, and Urdu. Achieving this requires parallel and other types of corpora for all 36 * 36 language pairs, addressing challenges like script variations, phonetic differences, and syntactic diversity. For instance, languages like Kashmiri and Sindhi, which use multiple scripts, demand script normalization for alignment, while low-resource languages such as Khasi and Santali require synthetic data augmentation to ensure sufficient coverage and quality. To address these challenges, this work proposes strategies for corpus creation by leveraging existing resources, developing parallel datasets, generating domain-specific corpora, and utilizing synthetic data techniques. Additionally, it evaluates machine translation across various dimensions, including standard and discourse-level translation, domain-specific translation, reference-based and reference-free evaluation, error analysis, and automatic post-editing. By integrating these elements, the study establishes a comprehensive framework to improve machine translation quality and enable better cross-lingual communication in India's linguistically diverse ecosystem.

Progress in Machine Learning is often driven by the availability of large datasets, and consistent evaluation metrics for comparing modeling approaches. To this end, we present a repository of conversational datasets consisting of hundreds of millions of examples, and a standardised evaluation procedure for conversational response selection models using '1-of-100 accuracy'. The repository contains scripts that allow researchers to reproduce the standard datasets, or to adapt the pre-processing and data filtering steps to their needs. We introduce and evaluate several competitive baselines for conversational response selection, whose implementations are shared in the repository, as well as a neural encoder model that is trained on the entire training set.

Document structure editing involves manipulating localized textual, visual, and layout components in document images based on the user's requests. Past works have shown that multimodal grounding of user requests in the document image and identifying the accurate structural components and their associated attributes remain key challenges for this task. To address these, we introduce the DocEdit-v2, a novel framework that performs end-to-end document editing by leveraging Large Multimodal Models (LMMs). It consists of three novel components: (1) Doc2Command, which simultaneously localizes edit regions of interest (RoI) and disambiguates user edit requests into edit commands; (2) LLM-based Command Reformulation prompting to tailor edit commands originally intended for specialized software into edit instructions suitable for generalist LMMs. (3) Moreover, DocEdit-v2 processes these outputs via Large Multimodal Models like GPT-4V and Gemini, to parse the document layout, execute edits on grounded Region of Interest (RoI), and generate the edited document image. Extensive experiments on the DocEdit dataset show that DocEdit-v2 significantly outperforms strong baselines on edit command generation (2-33%), RoI bounding box detection (12-31%), and overall document editing (1-12\%) tasks.

We introduce LyricWhiz, a robust, multilingual, and zero-shot automatic lyrics transcription method achieving state-of-the-art performance on various lyrics transcription datasets, even in challenging genres such as rock and metal. Our novel, training-free approach utilizes Whisper, a weakly supervised robust speech recognition model, and GPT-4, today's most performant chat-based large language model. In the proposed method, Whisper functions as the "ear" by transcribing the audio, while GPT-4 serves as the "brain," acting as an annotator with a strong performance for contextualized output selection and correction. Our experiments show that LyricWhiz significantly reduces Word Error Rate compared to existing methods in English and can effectively transcribe lyrics across multiple languages. Furthermore, we use LyricWhiz to create the first publicly available, large-scale, multilingual lyrics transcription dataset with a CC-BY-NC-SA copyright license, based on MTG-Jamendo, and offer a human-annotated subset for noise level estimation and evaluation. We anticipate that our proposed method and dataset will advance the development of multilingual lyrics transcription, a challenging and emerging task.

Handwritten mathematical expression recognition (HMER) is a challenging task that has many potential applications. Recent methods for HMER have achieved outstanding performance with an encoder-decoder architecture. However, these methods adhere to the paradigm that the prediction is made "from one character to another", which inevitably yields prediction errors due to the complicated structures of mathematical expressions or crabbed handwritings. In this paper, we propose a simple and efficient method for HMER, which is the first to incorporate syntax information into an encoder-decoder network. Specifically, we present a set of grammar rules for converting the LaTeX markup sequence of each expression into a parsing tree; then, we model the markup sequence prediction as a tree traverse process with a deep neural network. In this way, the proposed method can effectively describe the syntax context of expressions, alleviating the structure prediction errors of HMER. Experiments on three benchmark datasets demonstrate that our method achieves better recognition performance than prior arts. To further validate the effectiveness of our method, we create a large-scale dataset consisting of 100k handwritten mathematical expression images acquired from ten thousand writers. The source code, new dataset, and pre-trained models of this work will be publicly available.

Doctors typically write in incomprehensible handwriting, making it difficult for both the general public and some pharmacists to understand the medications they have prescribed. It is not ideal for them to write the prescription quietly and methodically because they will be dealing with dozens of patients every day and will be swamped with work.As a result, their handwriting is illegible. This may result in reports or prescriptions consisting of short forms and cursive writing that a typical person or pharmacist won't be able to read properly, which will cause prescribed medications to be misspelled. However, some individuals are accustomed to writing prescriptions in regional languages because we all live in an area with a diversity of regional languages. It makes analyzing the content much more challenging. So, in this project, we'll use a recognition system to build a tool that can translate the handwriting of physicians in any language. This system will be made into an application which is fully autonomous in functioning. As the user uploads the prescription image the program will pre-process the image by performing image pre-processing, and word segmentations initially before processing the image for training. And it will be done for every language we require the model to detect. And as of the deduction model will be made using deep learning techniques including CNN, RNN, and LSTM, which are utilized to train the model. To match words from various languages that will be written in the system, Unicode will be used. Furthermore, fuzzy search and market basket analysis are employed to offer an end result that will be optimized from the pharmaceutical database and displayed to the user as a structured output.

This paper introduces a novel approach to post-Optical Character Recognition Correction (POC) for handwritten Cyrillic text, addressing a significant gap in current research methodologies. This gap is due to the lack of large text corporas that provide OCR errors for further training of language-based POC models, which are demanding in terms of corpora size. Our study primarily focuses on the development and application of a synthetic handwriting generation engine based on B\'ezier curves. Such an engine generates highly realistic handwritten text in any amounts, which we utilize to create a substantial dataset by transforming Russian text corpora sourced from the internet. We apply a Handwritten Text Recognition (HTR) model to this dataset to identify OCR errors, forming the basis for our POC model training. The correction model is trained on a 90-symbol input context, utilizing a pre-trained T5 architecture with a seq2seq correction task. We evaluate our approach on HWR200 and School_notebooks_RU datasets as they provide significant challenges in the HTR domain. Furthermore, POC can be used to highlight errors for teachers, evaluating student performance. This can be done simply by comparing sentences before and after correction, displaying differences in text. Our primary contribution lies in the innovative use of B\'ezier curves for Cyrillic text generation and subsequent error correction using a specialized POC model. We validate our approach by presenting Word Accuracy Rate (WAR) and Character Accuracy Rate (CAR) results, both with and without post-OCR correction, using real open corporas of handwritten Cyrillic text. These results, coupled with our methodology, are designed to be reproducible, paving the way for further advancements in the field of OCR and handwritten text analysis. Paper contributions can be found in https://github.com/dbrainio/CyrillicHandwritingPOC

Multi-instrument music transcription aims to convert polyphonic music recordings into musical scores assigned to each instrument. This task is challenging for modeling as it requires simultaneously identifying multiple instruments and transcribing their pitch and precise timing, and the lack of fully annotated data adds to the training difficulties. This paper introduces YourMT3+, a suite of models for enhanced multi-instrument music transcription based on the recent language token decoding approach of MT3. We enhance its encoder by adopting a hierarchical attention transformer in the time-frequency domain and integrating a mixture of experts. To address data limitations, we introduce a new multi-channel decoding method for training with incomplete annotations and propose intra- and cross-stem augmentation for dataset mixing. Our experiments demonstrate direct vocal transcription capabilities, eliminating the need for voice separation pre-processors. Benchmarks across ten public datasets show our models' competitiveness with, or superiority to, existing transcription models. Further testing on pop music recordings highlights the limitations of current models. Fully reproducible code and datasets are available with demos at https://github.com/mimbres/YourMT3.

Over the past decade, the revolution in single-cell sequencing has enabled the simultaneous molecular profiling of various modalities across thousands of individual cells, allowing scientists to investigate the diverse functions of complex tissues and uncover underlying disease mechanisms. Among all the analytical steps, assigning individual cells to specific types is fundamental for understanding cellular heterogeneity. However, this process is usually labor-intensive and requires extensive expert knowledge. Recent advances in large language models (LLMs) have demonstrated their ability to efficiently process and synthesize vast corpora of text to automatically extract essential biological knowledge, such as marker genes, potentially promoting more efficient and automated cell type annotations. To thoroughly evaluate the capability of modern instruction-tuned LLMs in automating the cell type identification process, we introduce SOAR, a comprehensive benchmarking study of LLMs for cell type annotation tasks in single-cell genomics. Specifically, we assess the performance of 8 instruction-tuned LLMs across 11 datasets, spanning multiple cell types and species. Our study explores the potential of LLMs to accurately classify and annotate cell types in single-cell RNA sequencing (scRNA-seq) data, while extending their application to multiomics data through cross-modality translation. Additionally, we evaluate the effectiveness of chain-of-thought (CoT) prompting techniques in generating detailed biological insights during the annotation process. The results demonstrate that LLMs can provide robust interpretations of single-cell data without requiring additional fine-tuning, advancing the automation of cell type annotation in genomics research.

Large language models (LLMs) trained on text demonstrated remarkable results on natural language processing (NLP) tasks. These models have been adapted to decipher the language of DNA, where sequences of nucleotides act as "words" that encode genomic functions. However, the genome differs fundamentally from natural language, as it lacks clearly defined words or a consistent grammar. Although DNA language models (DNALMs) such as DNABERT, GENA-LM have achieved high level of performance on genome-related biological tasks, these models do not encode biological functions in the presence of sequence variations. To address this problem, we pre-train foundation models that effectively integrate sequence variations, in particular Single Nucleotide Polymorphisms (SNPs), as they underlie important biological functions. Specifically, we use ModernBERT to pre-train two different Biomedical Foundation Models (BMFM), namely, BMFM-DNA-REF in which the model is trained with sequences of varying lengths along with their reverse complements derived from the reference genome and BMFM-DNA-SNP in which the model is trained with sequences created using a novel representation scheme that encodes sequence variations. Our findings indicate that integrating sequence variations into DNALMs helps capture the biological functions as seen in improvements on all fine-tuning tasks. To explore the model's practical utility, we experimented with various strategies for SNP imputation on promoter detection task introduced in DNABERT-2. However, we acknowledge that the current benchmarks are limited in their ability to fully evaluate these models. To enable more comprehensive assessment in the future and encourage community contributions, we release our models through HuggingFace and the code to reproduce the results at https://github.com/BiomedSciAI/biomed-multi-omic

Training machine learning approaches for vulnerability identification and producing reliable tools to assist developers in implementing quality software -- free of vulnerabilities -- is challenging due to the lack of large datasets and real data. Researchers have been looking at these issues and building datasets. However, these datasets usually miss natural language artifacts and programming language diversity. We scraped the entire CVE details database for GitHub references and augmented the data with 3 security-related datasets. We used the data to create a ground-truth dataset of natural language artifacts (such as commit messages, commits comments, and summaries), meta-data and code changes. Our dataset integrates a total of 8057 security-relevant commits -- the equivalent to 5942 security patches -- from 1339 different projects spanning 146 different types of vulnerabilities and 20 languages. A dataset of 110k non-security-related commits is also provided. Data and scripts are all available on GitHub. Data is stored in a .CSV file. Codebases can be downloaded using our scripts. Our dataset is a valuable asset to answer research questions on different topics such as the identification of security-relevant information using NLP models; software engineering and security best practices; and, vulnerability detection and patching; and, security program analysis.

The importance of Scene Text Recognition (STR) in today's increasingly digital world cannot be overstated. Given the significance of STR, data intensive deep learning approaches that auto-learn feature mappings have primarily driven the development of STR solutions. Several benchmark datasets and substantial work on deep learning models are available for Latin languages to meet this need. On more complex, syntactically and semantically, Indian languages spoken and read by 1.3 billion people, there is less work and datasets available. This paper aims to address the Indian space's lack of a comprehensive dataset by proposing the largest and most comprehensive real dataset - IndicSTR12 - and benchmarking STR performance on 12 major Indian languages. A few works have addressed the same issue, but to the best of our knowledge, they focused on a small number of Indian languages. The size and complexity of the proposed dataset are comparable to those of existing Latin contemporaries, while its multilingualism will catalyse the development of robust text detection and recognition models. It was created specifically for a group of related languages with different scripts. The dataset contains over 27000 word-images gathered from various natural scenes, with over 1000 word-images for each language. Unlike previous datasets, the images cover a broader range of realistic conditions, including blur, illumination changes, occlusion, non-iconic texts, low resolution, perspective text etc. Along with the new dataset, we provide a high-performing baseline on three models - PARSeq, CRNN, and STARNet.

In medieval India, the Marathi language was written using the Modi script. The texts written in Modi script include extensive knowledge about medieval sciences, medicines, land records and authentic evidence about Indian history. Around 40 million documents are in poor condition and have not yet been transliterated. Furthermore, only a few experts in this domain can transliterate this script into English or Devanagari. Most of the past research predominantly focuses on individual character recognition. A system that can transliterate Modi script documents to Devanagari script is needed. We propose the MoDeTrans dataset, comprising 2,043 images of Modi script documents accompanied by their corresponding textual transliterations in Devanagari. We further introduce MoScNet (Modi Script Network), a novel Vision-Language Model (VLM) framework for transliterating Modi script images into Devanagari text. MoScNet leverages Knowledge Distillation, where a student model learns from a teacher model to enhance transliteration performance. The final student model of MoScNet has better performance than the teacher model while having 163times lower parameters. Our work is the first to perform direct transliteration from the handwritten Modi script to the Devanagari script. MoScNet also shows competitive results on the optical character recognition (OCR) task.

This report provides a preliminary evaluation of ChatGPT for machine translation, including translation prompt, multilingual translation, and translation robustness. We adopt the prompts advised by ChatGPT to trigger its translation ability and find that the candidate prompts generally work well and show minor performance differences. By evaluating on a number of benchmark test sets, we find that ChatGPT performs competitively with commercial translation products (e.g., Google Translate) on high-resource European languages but lags behind significantly on low-resource or distant languages. For distant languages, we explore an interesting strategy named pivot~prompting that asks ChatGPT to translate the source sentence into a high-resource pivot language before into the target language, which improves the translation performance significantly. As for the translation robustness, ChatGPT does not perform as well as the commercial systems on biomedical abstracts or Reddit comments but exhibits good results on spoken language. With the launch of the GPT-4 engine, the translation performance of ChatGPT is significantly boosted, becoming comparable to commercial translation products, even for distant languages. In other words, ChatGPT~has~already~become~a~good~translator! Scripts and data: https://github.com/wxjiao/Is-ChatGPT-A-Good-Translator

We present a direct speech-to-speech translation (S2ST) model that translates speech from one language to speech in another language without relying on intermediate text generation. We tackle the problem by first applying a self-supervised discrete speech encoder on the target speech and then training a sequence-to-sequence speech-to-unit translation (S2UT) model to predict the discrete representations of the target speech. When target text transcripts are available, we design a joint speech and text training framework that enables the model to generate dual modality output (speech and text) simultaneously in the same inference pass. Experiments on the Fisher Spanish-English dataset show that the proposed framework yields improvement of 6.7 BLEU compared with a baseline direct S2ST model that predicts spectrogram features. When trained without any text transcripts, our model performance is comparable to models that predict spectrograms and are trained with text supervision, showing the potential of our system for translation between unwritten languages. Audio samples are available at https://facebookresearch.github.io/speech_translation/direct_s2st_units/index.html .

This paper introduces a high-quality rich annotated Mandarin conversational (RAMC) speech dataset called MagicData-RAMC. The MagicData-RAMC corpus contains 180 hours of conversational speech data recorded from native speakers of Mandarin Chinese over mobile phones with a sampling rate of 16 kHz. The dialogs in MagicData-RAMC are classified into 15 diversified domains and tagged with topic labels, ranging from science and technology to ordinary life. Accurate transcription and precise speaker voice activity timestamps are manually labeled for each sample. Speakers' detailed information is also provided. As a Mandarin speech dataset designed for dialog scenarios with high quality and rich annotations, MagicData-RAMC enriches the data diversity in the Mandarin speech community and allows extensive research on a series of speech-related tasks, including automatic speech recognition, speaker diarization, topic detection, keyword search, text-to-speech, etc. We also conduct several relevant tasks and provide experimental results to help evaluate the dataset.

Text editing frames grammatical error correction (GEC) as a sequence tagging problem, where edit tags are assigned to input tokens, and applying these edits results in the corrected text. This approach has gained attention for its efficiency and interpretability. However, while extensively explored for English, text editing remains largely underexplored for morphologically rich languages like Arabic. In this paper, we introduce a text editing approach that derives edit tags directly from data, eliminating the need for language-specific edits. We demonstrate its effectiveness on Arabic, a diglossic and morphologically rich language, and investigate the impact of different edit representations on model performance. Our approach achieves SOTA results on two Arabic GEC benchmarks and performs on par with SOTA on two others. Additionally, our models are over six times faster than existing Arabic GEC systems, making our approach more practical for real-world applications. Finally, we explore ensemble models, demonstrating how combining different models leads to further performance improvements. We make our code, data, and pretrained models publicly available.

We consider the problem of translating high-level textual descriptions to formal representations in technical documentation as part of an effort to model the meaning of such documentation. We focus specifically on the problem of learning translational correspondences between text descriptions and grounded representations in the target documentation, such as formal representation of functions or code templates. Our approach exploits the parallel nature of such documentation, or the tight coupling between high-level text and the low-level representations we aim to learn. Data is collected by mining technical documents for such parallel text-representation pairs, which we use to train a simple semantic parsing model. We report new baseline results on sixteen novel datasets, including the standard library documentation for nine popular programming languages across seven natural languages, and a small collection of Unix utility manuals.

Electronic health records contain an enormous amount of valuable information, but many are recorded in free text. Information extraction is the strategy to transform the sequence of characters into structured data, which can be employed for secondary analysis. However, the traditional information extraction components, such as named entity recognition and relation extraction, require annotated data to optimize the model parameters, which has become one of the major bottlenecks in building information extraction systems. With the large language models achieving good performances on various downstream NLP tasks without parameter tuning, it becomes possible to use large language models for zero-shot information extraction. In this study, we aim to explore whether the most popular large language model, ChatGPT, can extract useful information from the radiological reports. We first design the prompt template for the interested information in the CT reports. Then, we generate the prompts by combining the prompt template with the CT reports as the inputs of ChatGPT to obtain the responses. A post-processing module is developed to transform the responses into structured extraction results. We conducted the experiments with 847 CT reports collected from Peking University Cancer Hospital. The experimental results indicate that ChatGPT can achieve competitive performances for some extraction tasks compared with the baseline information extraction system, but some limitations need to be further improved.

Spoken language conveys meaning not only through words but also through intonation, emotion, and emphasis. Sentence stress, the emphasis placed on specific words within a sentence, is crucial for conveying speaker intent and has been extensively studied in linguistics. In this work, we introduce WHISTRESS, an alignment-free approach for enhancing transcription systems with sentence stress detection. To support this task, we propose TINYSTRESS-15K, a scalable, synthetic training data for the task of sentence stress detection which resulted from a fully automated dataset creation process. We train WHISTRESS on TINYSTRESS-15K and evaluate it against several competitive baselines. Our results show that WHISTRESS outperforms existing methods while requiring no additional input priors during training or inference. Notably, despite being trained on synthetic data, WHISTRESS demonstrates strong zero-shot generalization across diverse benchmarks. Project page: https://pages.cs.huji.ac.il/adiyoss-lab/whistress.

We introduce a general detection-based approach to text line recognition, be it printed (OCR) or handwritten (HTR), with Latin, Chinese, or ciphered characters. Detection-based approaches have until now been largely discarded for HTR because reading characters separately is often challenging, and character-level annotation is difficult and expensive. We overcome these challenges thanks to three main insights: (i) synthetic pre-training with sufficiently diverse data enables learning reasonable character localization for any script; (ii) modern transformer-based detectors can jointly detect a large number of instances, and, if trained with an adequate masking strategy, leverage consistency between the different detections; (iii) once a pre-trained detection model with approximate character localization is available, it is possible to fine-tune it with line-level annotation on real data, even with a different alphabet. Our approach, dubbed DTLR, builds on a completely different paradigm than state-of-the-art HTR methods, which rely on autoregressive decoding, predicting character values one by one, while we treat a complete line in parallel. Remarkably, we demonstrate good performance on a large range of scripts, usually tackled with specialized approaches. In particular, we improve state-of-the-art performances for Chinese script recognition on the CASIA v2 dataset, and for cipher recognition on the Borg and Copiale datasets. Our code and models are available at https://github.com/raphael-baena/DTLR.

Existing approaches to multilingual text detoxification are hampered by the scarcity of parallel multilingual datasets. In this work, we introduce a pipeline for the generation of multilingual parallel detoxification data. We also introduce SynthDetoxM, a manually collected and synthetically generated multilingual parallel text detoxification dataset comprising 16,000 high-quality detoxification sentence pairs across German, French, Spanish and Russian. The data was sourced from different toxicity evaluation datasets and then rewritten with nine modern open-source LLMs in few-shot setting. Our experiments demonstrate that models trained on the produced synthetic datasets have superior performance to those trained on the human-annotated MultiParaDetox dataset even in data limited setting. Models trained on SynthDetoxM outperform all evaluated LLMs in few-shot setting. We release our dataset and code to help further research in multilingual text detoxification.

Enabling engagement of manga by visually impaired individuals presents a significant challenge due to its inherently visual nature. With the goal of fostering accessibility, this paper aims to generate a dialogue transcript of a complete manga chapter, entirely automatically, with a particular emphasis on ensuring narrative consistency. This entails identifying (i) what is being said, i.e., detecting the texts on each page and classifying them into essential vs non-essential, and (ii) who is saying it, i.e., attributing each dialogue to its speaker, while ensuring the same characters are named consistently throughout the chapter. To this end, we introduce: (i) Magiv2, a model that is capable of generating high-quality chapter-wide manga transcripts with named characters and significantly higher precision in speaker diarisation over prior works; (ii) an extension of the PopManga evaluation dataset, which now includes annotations for speech-bubble tail boxes, associations of text to corresponding tails, classifications of text as essential or non-essential, and the identity for each character box; and (iii) a new character bank dataset, which comprises over 11K characters from 76 manga series, featuring 11.5K exemplar character images in total, as well as a list of chapters in which they appear. The code, trained model, and both datasets can be found at: https://github.com/ragavsachdeva/magi

Prompts are crucial to large language models as they provide context information such as topic or logical relationships. Inspired by this, we propose PromptASR, a framework that integrates prompts in end-to-end automatic speech recognition (E2E ASR) systems to achieve contextualized ASR with controllable style of transcriptions. Specifically, a dedicated text encoder encodes the text prompts and the encodings are injected into the speech encoder by cross-attending the features from two modalities. When using the ground truth text from preceding utterances as content prompt, the proposed system achieves 21.9% and 6.8% relative word error rate reductions on a book reading dataset and an in-house dataset compared to a baseline ASR system. The system can also take word-level biasing lists as prompt to improve recognition accuracy on rare words. An additional style prompt can be given to the text encoder and guide the ASR system to output different styles of transcriptions. The code is available at icefall.

We introduce SummScreen, a summarization dataset comprised of pairs of TV series transcripts and human written recaps. The dataset provides a challenging testbed for abstractive summarization for several reasons. Plot details are often expressed indirectly in character dialogues and may be scattered across the entirety of the transcript. These details must be found and integrated to form the succinct plot descriptions in the recaps. Also, TV scripts contain content that does not directly pertain to the central plot but rather serves to develop characters or provide comic relief. This information is rarely contained in recaps. Since characters are fundamental to TV series, we also propose two entity-centric evaluation metrics. Empirically, we characterize the dataset by evaluating several methods, including neural models and those based on nearest neighbors. An oracle extractive approach outperforms all benchmarked models according to automatic metrics, showing that the neural models are unable to fully exploit the input transcripts. Human evaluation and qualitative analysis reveal that our non-oracle models are competitive with their oracle counterparts in terms of generating faithful plot events and can benefit from better content selectors. Both oracle and non-oracle models generate unfaithful facts, suggesting future research directions.

Abugida refers to a phonogram writing system where each syllable is represented using a single consonant or typographic ligature, along with a default vowel or optional diacritic(s) to denote other vowels. However, texting in these languages has some unique challenges in spite of the advent of devices with soft keyboard supporting custom key layouts. The number of characters in these languages is large enough to require characters to be spread over multiple views in the layout. Having to switch between views many times to type a single word hinders the natural thought process. This prevents popular usage of native keyboard layouts. On the other hand, supporting romanized scripts (native words transcribed using Latin characters) with language model based suggestions is also set back by the lack of uniform romanization rules. To this end, we propose a disambiguation algorithm and showcase its usefulness in two novel mutually non-exclusive input methods for languages natively using the abugida writing system: (a) disambiguation of ambiguous input for abugida scripts, and (b) disambiguation of word variants in romanized scripts. We benchmark these approaches using public datasets, and show an improvement in typing speed by 19.49%, 25.13%, and 14.89%, in Hindi, Bengali, and Thai, respectively, using Ambiguous Input, owing to the human ease of locating keys combined with the efficiency of our inference method. Our Word Variant Disambiguation (WDA) maps valid variants of romanized words, previously treated as Out-of-Vocab, to a vocabulary of 100k words with high accuracy, leading to an increase in Error Correction F1 score by 10.03% and Next Word Prediction (NWP) by 62.50% on average.

We open-source SMOL (Set of Maximal Overall Leverage), a suite of training data to unlock translation for low-resource languages (LRLs). SMOL has been translated into 115 under-resourced languages, including many for which there exist no previous public resources, for a total of 6.1M translated tokens. SMOL comprises two sub-datasets, each carefully chosen for maximum impact given its size: SMOL-Sent, a set of sentences chosen for broad unique token coverage, and SMOL-Doc, a document-level source focusing on a broad topic coverage. They join the already released GATITOS for a trifecta of paragraph, sentence, and token-level content. We demonstrate that using SMOL to prompt or fine-tune Large Language Models yields robust ChrF improvements. In addition to translation, we provide factuality ratings and rationales for all documents in SMOL-Doc, yielding the first factuality datasets for most of these languages.

We train a bilingual Arabic-Hebrew language model using a transliterated version of Arabic texts in Hebrew, to ensure both languages are represented in the same script. Given the morphological, structural similarities, and the extensive number of cognates shared among Arabic and Hebrew, we assess the performance of a language model that employs a unified script for both languages, on machine translation which requires cross-lingual knowledge. The results are promising: our model outperforms a contrasting model which keeps the Arabic texts in the Arabic script, demonstrating the efficacy of the transliteration step. Despite being trained on a dataset approximately 60% smaller than that of other existing language models, our model appears to deliver comparable performance in machine translation across both translation directions.

We introduce SignBank+, a clean version of the SignBank dataset, optimized for machine translation between spoken language text and SignWriting, a phonetic sign language writing system. In addition to previous work that employs complex factorization techniques to enable translation between text and SignWriting, we show that a traditional text-to-text translation approach performs equally effectively on the cleaned SignBank+ dataset. Our evaluation results indicate that models trained on SignBank+ surpass those on the original dataset, establishing a new benchmark for SignWriting-based sign language translation and providing an open resource for future research.

The recent advancement of speech recognition technology has been driven by large-scale datasets and attention-based architectures, but many challenges still remain, especially for low-resource languages and dialects. This paper explores the integration of weakly supervised transcripts from TV subtitles into automatic speech recognition (ASR) systems, aiming to improve both verbatim transcriptions and automatically generated subtitles. To this end, verbatim data and subtitles are regarded as different domains or languages, due to their distinct characteristics. We propose and compare several end-to-end architectures that are designed to jointly model both modalities with separate or shared encoders and decoders. The proposed methods are able to jointly generate a verbatim transcription and a subtitle. Evaluation on Flemish (Belgian Dutch) demonstrates that a model with cascaded encoders and separate decoders allows to represent the differences between the two data types most efficiently while improving on both domains. Despite differences in domain and linguistic variations, combining verbatim transcripts with subtitle data leads to notable ASR improvements without the need for extensive preprocessing. Additionally, experiments with a large-scale subtitle dataset show the scalability of the proposed approach. The methods not only improve ASR accuracy but also generate subtitles that closely match standard written text, offering several potential applications.

We present a novel contribution to Spanish clinical natural language processing by introducing the largest publicly available clinical corpus, ClinText-SP, along with a state-of-the-art clinical encoder language model, RigoBERTa Clinical. Our corpus was meticulously curated from diverse open sources, including clinical cases from medical journals and annotated corpora from shared tasks, providing a rich and diverse dataset that was previously difficult to access. RigoBERTa Clinical, developed through domain-adaptive pretraining on this comprehensive dataset, significantly outperforms existing models on multiple clinical NLP benchmarks. By publicly releasing both the dataset and the model, we aim to empower the research community with robust resources that can drive further advancements in clinical NLP and ultimately contribute to improved healthcare applications.

Role-playing chatbots built on large language models have drawn interest, but better techniques are needed to enable mimicking specific fictional characters. We propose an algorithm that controls language models via an improved prompt and memories of the character extracted from scripts. We construct ChatHaruhi, a dataset covering 32 Chinese / English TV / anime characters with over 54k simulated dialogues. Both automatic and human evaluations show our approach improves role-playing ability over baselines. Code and data are available at https://github.com/LC1332/Chat-Haruhi-Suzumiya .

Large Language Models (LLMs) have shown the potential to significantly contribute to patient care, diagnostics, and administrative processes. Emerging biomedical LLMs address healthcare-specific challenges, including privacy demands and computational constraints. However, evaluation of these models has primarily been limited to non-clinical tasks, which do not reflect the complexity of practical clinical applications. Additionally, there has been no thorough comparison between biomedical and general-domain LLMs for clinical tasks. To fill this gap, we present the Clinical Language Understanding Evaluation (CLUE), a benchmark tailored to evaluate LLMs on real-world clinical tasks. CLUE includes two novel datasets derived from MIMIC IV discharge letters and four existing tasks designed to test the practical applicability of LLMs in healthcare settings. Our evaluation covers several biomedical and general domain LLMs, providing insights into their clinical performance and applicability. CLUE represents a step towards a standardized approach to evaluating and developing LLMs in healthcare to align future model development with the real-world needs of clinical application. We publish our evaluation and data generation scripts: https://github.com/dadaamin/CLUE

One of the key issues in Mandarin Chinese text-to-speech (TTS) systems is polyphone disambiguation when doing grapheme-to-phoneme (G2P) conversion. In this paper, we introduce a novel method to solve the problem as a generation task. Following the trending research of large language models (LLM) and prompt learning, the proposed method consists of three modules. Retrieval module incorporates external knowledge which is a multi-level semantic dictionary of Chinese polyphonic characters to format the sentence into a prompt. Generation module adopts the decoder-only Transformer architecture to induce the target text. Postprocess module corrects the generated text into a valid result if needed. Experimental results show that our method outperforms the existing methods on a public dataset called CPP. We also empirically study the impacts of different templates of the prompt, different sizes of training data, and whether to incorporate external knowledge.

CONTEXT The R programming language has a huge and active community, especially in the area of statistical computing. Its interpreted nature allows for several interesting constructs, like the manipulation of functions at run-time, that hinder the static analysis of R programs. At the same time, there is a lack of existing research regarding how these features, or even the R language as a whole are used in practice. OBJECTIVE In this paper, we conduct a large-scale, static analysis of more than 50 million lines of real-world R programs and packages to identify their characteristics and the features that are actually used. Moreover, we compare the similarities and differences between the scripts of R users and the implementations of package authors. We provide insights for static analysis tools like the lintr package as well as potential interpreter optimizations and uncover areas for future research. METHOD We analyze 4230 R scripts submitted alongside publications and the sources of 19450 CRAN packages for over 350000 R files, collecting and summarizing quantitative information for features of interest. RESULTS We find a high frequency of name-based indexing operations, assignments, and loops, but a low frequency for most of R's reflective functions. Furthermore, we find neither testing functions nor many calls to R's foreign function interface (FFI) in the publication submissions. CONCLUSION R scripts and package sources differ, for example, in their size, the way they include other packages, and their usage of R's reflective capabilities. We provide features that are used frequently and should be prioritized by static analysis tools, like operator assignments, function calls, and certain reflective functions like load.

Publicly available source-code libraries are continuously growing and changing. This makes it impossible for models of code to keep current with all available APIs by simply training these models on existing code repositories. Thus, existing models inherently cannot generalize to using unseen functions and libraries, because these would never appear in the training data. In contrast, when human programmers use functions and libraries for the first time, they frequently refer to textual resources such as code manuals and documentation, to explore and understand the available functionality. Inspired by this observation, we introduce DocPrompting: a natural-language-to-code generation approach that explicitly leverages documentation by (1) retrieving the relevant documentation pieces given an NL intent, and (2) generating code based on the NL intent and the retrieved documentation. DocPrompting is general: it can be applied to any programming language and is agnostic to the underlying neural model. We demonstrate that DocPrompting consistently improves NL-to-code models: DocPrompting improves strong base models such as CodeT5 by 2.85% in pass@1 (52% relative gain) and 4.39% in pass@10 (30% relative gain) in execution-based evaluation on the popular Python CoNaLa benchmark; on a new Bash dataset tldr, DocPrompting improves CodeT5 and GPT-Neo1.3B by up to absolute 6.9% exact match.

This paper accompanies the release of Opusparcus, a new paraphrase corpus for six European languages: German, English, Finnish, French, Russian, and Swedish. The corpus consists of paraphrases, that is, pairs of sentences in the same language that mean approximately the same thing. The paraphrases are extracted from the OpenSubtitles2016 corpus, which contains subtitles from movies and TV shows. The informal and colloquial genre that occurs in subtitles makes such data a very interesting language resource, for instance, from the perspective of computer assisted language learning. For each target language, the Opusparcus data have been partitioned into three types of data sets: training, development and test sets. The training sets are large, consisting of millions of sentence pairs, and have been compiled automatically, with the help of probabilistic ranking functions. The development and test sets consist of sentence pairs that have been checked manually; each set contains approximately 1000 sentence pairs that have been verified to be acceptable paraphrases by two annotators.

Despite rapid progress in increasing the language coverage of automatic speech recognition, the field is still far from covering all languages with a known writing script. Recent work showed promising results with a zero-shot approach requiring only a small amount of text data, however, accuracy heavily depends on the quality of the used phonemizer which is often weak for unseen languages. In this paper, we present MMS Zero-shot a conceptually simpler approach based on romanization and an acoustic model trained on data in 1,078 different languages or three orders of magnitude more than prior art. MMS Zero-shot reduces the average character error rate by a relative 46% over 100 unseen languages compared to the best previous work. Moreover, the error rate of our approach is only 2.5x higher compared to in-domain supervised baselines, while our approach uses no labeled data for the evaluation languages at all.

Textual health records of cancer patients are usually protracted and highly unstructured, making it very time-consuming for health professionals to get a complete overview of the patient's therapeutic course. As such limitations can lead to suboptimal and/or inefficient treatment procedures, healthcare providers would greatly benefit from a system that effectively summarizes the information of those records. With the advent of deep neural models, this objective has been partially attained for English clinical texts, however, the research community still lacks an effective solution for languages with limited resources. In this paper, we present the approach we developed to extract procedures, drugs, and diseases from oncology health records written in European Portuguese. This project was conducted in collaboration with the Portuguese Institute for Oncology which, besides holding over 10 years of duly protected medical records, also provided oncologist expertise throughout the development of the project. Since there is no annotated corpus for biomedical entity extraction in Portuguese, we also present the strategy we followed in annotating the corpus for the development of the models. The final models, which combined a neural architecture with entity linking, achieved F_1 scores of 88.6, 95.0, and 55.8 per cent in the mention extraction of procedures, drugs, and diseases, respectively.

Transcriptomic foundation models (TFMs) have recently emerged as powerful tools for analyzing gene expression in cells and tissues, supporting key tasks such as cell-type annotation, batch correction, and perturbation prediction. However, the diversity of model implementations and training strategies across recent TFMs, though promising, makes it challenging to isolate the contribution of individual design choices or evaluate their potential synergies. This hinders the field's ability to converge on best practices and limits the reproducibility of insights across studies. We present BMFM-RNA, an open-source, modular software package that unifies diverse TFM pretraining and fine-tuning objectives within a single framework. Leveraging this capability, we introduce a novel training objective, whole cell expression decoder (WCED), which captures global expression patterns using an autoencoder-like CLS bottleneck representation. In this paper, we describe the framework, supported input representations, and training objectives. We evaluated four model checkpoints pretrained on CELLxGENE using combinations of masked language modeling (MLM), WCED and multitask learning. Using the benchmarking capabilities of BMFM-RNA, we show that WCED-based models achieve performance that matches or exceeds state-of-the-art approaches like scGPT across more than a dozen datasets in both zero-shot and fine-tuning tasks. BMFM-RNA, available as part of the biomed-multi-omics project ( https://github.com/BiomedSciAI/biomed-multi-omic ), offers a reproducible foundation for systematic benchmarking and community-driven exploration of optimal TFM training strategies, enabling the development of more effective tools to leverage the latest advances in AI for understanding cell biology.

We introduce Codex, a GPT language model fine-tuned on publicly available code from GitHub, and study its Python code-writing capabilities. A distinct production version of Codex powers GitHub Copilot. On HumanEval, a new evaluation set we release to measure functional correctness for synthesizing programs from docstrings, our model solves 28.8% of the problems, while GPT-3 solves 0% and GPT-J solves 11.4%. Furthermore, we find that repeated sampling from the model is a surprisingly effective strategy for producing working solutions to difficult prompts. Using this method, we solve 70.2% of our problems with 100 samples per problem. Careful investigation of our model reveals its limitations, including difficulty with docstrings describing long chains of operations and with binding operations to variables. Finally, we discuss the potential broader impacts of deploying powerful code generation technologies, covering safety, security, and economics.

Speech recognition applications cover a range of different audio and text distributions, with different speaking styles, background noise, transcription punctuation and character casing. However, many speech recognition systems require dataset-specific tuning (audio filtering, punctuation removal and normalisation of casing), therefore assuming a-priori knowledge of both the audio and text distributions. This tuning requirement can lead to systems failing to generalise to other datasets and domains. To promote the development of multi-domain speech systems, we introduce the End-to-end Speech Benchmark (ESB) for evaluating the performance of a single automatic speech recognition (ASR) system across a broad set of speech datasets. Benchmarked systems must use the same data pre- and post-processing algorithm across datasets - assuming the audio and text data distributions are a-priori unknown. We compare a series of state-of-the-art (SoTA) end-to-end (E2E) systems on this benchmark, demonstrating how a single speech system can be applied and evaluated on a wide range of data distributions. We find E2E systems to be effective across datasets: in a fair comparison, E2E systems achieve within 2.6% of SoTA systems tuned to a specific dataset. Our analysis reveals that transcription artefacts, such as punctuation and casing, pose difficulties for ASR systems and should be included in evaluation. We believe E2E benchmarking over a range of datasets promotes the research of multi-domain speech recognition systems. ESB is available at https://huggingface.co/esb.

We present new data and semantic parsing methods for the problem of mapping English sentences to Bash commands (NL2Bash). Our long-term goal is to enable any user to perform operations such as file manipulation, search, and application-specific scripting by simply stating their goals in English. We take a first step in this domain, by providing a new dataset of challenging but commonly used Bash commands and expert-written English descriptions, along with baseline methods to establish performance levels on this task.

Activity and property prediction models are the central workhorses in drug discovery and materials sciences, but currently they have to be trained or fine-tuned for new tasks. Without training or fine-tuning, scientific language models could be used for such low-data tasks through their announced zero- and few-shot capabilities. However, their predictive quality at activity prediction is lacking. In this work, we envision a novel type of activity prediction model that is able to adapt to new prediction tasks at inference time, via understanding textual information describing the task. To this end, we propose a new architecture with separate modules for chemical and natural language inputs, and a contrastive pre-training objective on data from large biochemical databases. In extensive experiments, we show that our method CLAMP yields improved predictive performance on few-shot learning benchmarks and zero-shot problems in drug discovery. We attribute the advances of our method to the modularized architecture and to our pre-training objective.

In this report, we introduce SciFive, a domain-specific T5 model that has been pre-trained on large biomedical corpora. Our model outperforms the current SOTA methods (i.e. BERT, BioBERT, Base T5) on tasks in named entity relation, relation extraction, natural language inference, and question-answering. We show that text-generation methods have significant potential in a broad array of biomedical NLP tasks, particularly those requiring longer, more complex outputs. Our results support the exploration of more difficult text generation tasks and the development of new methods in this area

Physicians spend significant time documenting clinical encounters, a burden that contributes to professional burnout. To address this, robust automation tools for medical documentation are crucial. We introduce MedSynth -- a novel dataset of synthetic medical dialogues and notes designed to advance the Dialogue-to-Note (Dial-2-Note) and Note-to-Dialogue (Note-2-Dial) tasks. Informed by an extensive analysis of disease distributions, this dataset includes over 10,000 dialogue-note pairs covering over 2000 ICD-10 codes. We demonstrate that our dataset markedly enhances the performance of models in generating medical notes from dialogues, and dialogues from medical notes. The dataset provides a valuable resource in a field where open-access, privacy-compliant, and diverse training data are scarce. Code is available at https://github.com/ahmadrezarm/MedSynth/tree/main and the dataset is available at https://huggingface.co/datasets/Ahmad0067/MedSynth.

Following each patient visit, physicians draft long semi-structured clinical summaries called SOAP notes. While invaluable to clinicians and researchers, creating digital SOAP notes is burdensome, contributing to physician burnout. In this paper, we introduce the first complete pipelines to leverage deep summarization models to generate these notes based on transcripts of conversations between physicians and patients. After exploring a spectrum of methods across the extractive-abstractive spectrum, we propose Cluster2Sent, an algorithm that (i) extracts important utterances relevant to each summary section; (ii) clusters together related utterances; and then (iii) generates one summary sentence per cluster. Cluster2Sent outperforms its purely abstractive counterpart by 8 ROUGE-1 points, and produces significantly more factual and coherent sentences as assessed by expert human evaluators. For reproducibility, we demonstrate similar benefits on the publicly available AMI dataset. Our results speak to the benefits of structuring summaries into sections and annotating supporting evidence when constructing summarization corpora.

We describe the development and capabilities of Meltemi 7B, the first open Large Language Model for the Greek language. Meltemi 7B has 7 billion parameters and is trained on a 40 billion token Greek corpus. For the development of Meltemi 7B, we adapt Mistral, by continuous pretraining on the Greek Corpus. Meltemi 7B contains up-to-date information up to September 2023. Furthermore, we have translated and curated a Greek instruction corpus, which has been used for the instruction-tuning of a chat model, named Meltemi 7B Instruct. Special care has been given to the alignment and the removal of toxic content for the Meltemi 7B Instruct. The developed models are evaluated on a broad set of collected evaluation corpora, and examples of prompts and responses are presented. Both Meltemi 7B and Meltemi 7B Instruct are available at https://huggingface.co/ilsp under the Apache 2.0 license.

Ribonucleic acid (RNA) plays a variety of crucial roles in fundamental biological processes. Recently, RNA has become an interesting drug target, emphasizing the need to improve our understanding of its structures and functions. Over the years, sequencing technologies have produced an enormous amount of unlabeled RNA data, which hides important knowledge and potential. Motivated by the successes of protein language models, we introduce RiboNucleic Acid Language Model (RiNALMo) to help unveil the hidden code of RNA. RiNALMo is the largest RNA language model to date with 650 million parameters pre-trained on 36 million non-coding RNA sequences from several available databases. RiNALMo is able to extract hidden knowledge and capture the underlying structure information implicitly embedded within the RNA sequences. RiNALMo achieves state-of-the-art results on several downstream tasks. Notably, we show that its generalization capabilities can overcome the inability of other deep learning methods for secondary structure prediction to generalize on unseen RNA families. The code has been made publicly available on https://github.com/lbcb-sci/RiNALMo.

Advancements in DNA sequencing technologies have significantly improved our ability to decode genomic sequences. However, the prediction and interpretation of these sequences remain challenging due to the intricate nature of genetic material. Large language models (LLMs) have introduced new opportunities for biological sequence analysis. Recent developments in genomic language models have underscored the potential of LLMs in deciphering DNA sequences. Nonetheless, existing models often face limitations in robustness and application scope, primarily due to constraints in model structure and training data scale. To address these limitations, we present GENERator, a generative genomic foundation model featuring a context length of 98k base pairs (bp) and 1.2B parameters. Trained on an expansive dataset comprising 386B bp of eukaryotic DNA, the GENERator demonstrates state-of-the-art performance across both established and newly proposed benchmarks. The model adheres to the central dogma of molecular biology, accurately generating protein-coding sequences that translate into proteins structurally analogous to known families. It also shows significant promise in sequence optimization, particularly through the prompt-responsive generation of promoter sequences with specific activity profiles. These capabilities position the GENERator as a pivotal tool for genomic research and biotechnological advancement, enhancing our ability to interpret and predict complex biological systems and enabling precise genomic interventions.

Scientific documents record research findings and valuable human knowledge, comprising a vast corpus of high-quality data. Leveraging multi-modality data extracted from these documents and assessing large models' abilities to handle scientific document-oriented tasks is therefore meaningful. Despite promising advancements, large models still perform poorly on multi-page scientific document extraction and understanding tasks, and their capacity to process within-document data formats such as charts and equations remains under-explored. To address these issues, we present DocGenome, a structured document benchmark constructed by annotating 500K scientific documents from 153 disciplines in the arXiv open-access community, using our custom auto-labeling pipeline. DocGenome features four key characteristics: 1) Completeness: It is the first dataset to structure data from all modalities including 13 layout attributes along with their LaTeX source codes. 2) Logicality: It provides 6 logical relationships between different entities within each scientific document. 3) Diversity: It covers various document-oriented tasks, including document classification, visual grounding, document layout detection, document transformation, open-ended single-page QA and multi-page QA. 4) Correctness: It undergoes rigorous quality control checks conducted by a specialized team. We conduct extensive experiments to demonstrate the advantages of DocGenome and objectively evaluate the performance of large models on our benchmark.

This paper announces the early release of SpokesBiz, a freely available corpus of conversational Polish developed within the CLARIN-BIZ project and comprising over 650 hours of recordings. The transcribed recordings have been diarized and manually annotated for punctuation and casing. We outline the general structure and content of the corpus, showcasing selected applications in linguistic research, evaluation and improvement of automatic speech recognition (ASR) systems

This paper introduces GigaSpeech, an evolving, multi-domain English speech recognition corpus with 10,000 hours of high quality labeled audio suitable for supervised training, and 40,000 hours of total audio suitable for semi-supervised and unsupervised training. Around 40,000 hours of transcribed audio is first collected from audiobooks, podcasts and YouTube, covering both read and spontaneous speaking styles, and a variety of topics, such as arts, science, sports, etc. A new forced alignment and segmentation pipeline is proposed to create sentence segments suitable for speech recognition training, and to filter out segments with low-quality transcription. For system training, GigaSpeech provides five subsets of different sizes, 10h, 250h, 1000h, 2500h, and 10000h. For our 10,000-hour XL training subset, we cap the word error rate at 4% during the filtering/validation stage, and for all our other smaller training subsets, we cap it at 0%. The DEV and TEST evaluation sets, on the other hand, are re-processed by professional human transcribers to ensure high transcription quality. Baseline systems are provided for popular speech recognition toolkits, namely Athena, ESPnet, Kaldi and Pika.

Transliterating related languages that use different scripts into a common script shows effectiveness in improving crosslingual transfer in downstream tasks. However, this methodology often makes pretraining a model from scratch unavoidable, as transliteration brings about new subwords not covered in existing multilingual pretrained language models (mPLMs). This is not desired because it takes a lot of computation budget for pretraining. A more promising way is to make full use of available mPLMs. To this end, this paper proposes a simple but effective framework: Transliterate-Merge-Initialize (TransMI), which can create a strong baseline well-suited for data that is transliterated into a common script by exploiting an mPLM and its accompanied tokenizer. TransMI has three stages: (a) transliterate the vocabulary of an mPLM into a common script; (b) merge the new vocabulary with the original vocabulary; and (c) initialize the embeddings of the new subwords. We applied TransMI to three recent strong mPLMs, and our experiments demonstrate that TransMI not only preserves their ability to handle non-transliterated data, but also enables the models to effectively process transliterated data: the results show a consistent improvement of 3% to 34%, varying across different models and tasks. We make our code and models publicly available at https://github.com/cisnlp/TransMI.

Using LLMs (Large Language Models) in conjunction with external documents has made RAG (Retrieval-Augmented Generation) an essential technology. Numerous techniques and modules for RAG are being researched, but their performance can vary across different datasets. Finding RAG modules that perform well on specific datasets is challenging. In this paper, we propose the AutoRAG framework, which automatically identifies suitable RAG modules for a given dataset. AutoRAG explores and approximates the optimal combination of RAG modules for the dataset. Additionally, we share the results of optimizing a dataset using AutoRAG. All experimental results and data are publicly available and can be accessed through our GitHub repository https://github.com/Marker-Inc-Korea/AutoRAG_ARAGOG_Paper .

Recent proprietary large language models (LLMs), such as GPT-4, have achieved a milestone in tackling diverse challenges in the biomedical domain, ranging from multiple-choice questions to long-form generations. To address challenges that still cannot be handled with the encoded knowledge of LLMs, various retrieval-augmented generation (RAG) methods have been developed by searching documents from the knowledge corpus and appending them unconditionally or selectively to the input of LLMs for generation. However, when applying existing methods to different domain-specific problems, poor generalization becomes apparent, leading to fetching incorrect documents or making inaccurate judgments. In this paper, we introduce Self-BioRAG, a framework reliable for biomedical text that specializes in generating explanations, retrieving domain-specific documents, and self-reflecting generated responses. We utilize 84k filtered biomedical instruction sets to train Self-BioRAG that can assess its generated explanations with customized reflective tokens. Our work proves that domain-specific components, such as a retriever, domain-related document corpus, and instruction sets are necessary for adhering to domain-related instructions. Using three major medical question-answering benchmark datasets, experimental results of Self-BioRAG demonstrate significant performance gains by achieving a 7.2% absolute improvement on average over the state-of-the-art open-foundation model with a parameter size of 7B or less. Overall, we analyze that Self-BioRAG finds the clues in the question, retrieves relevant documents if needed, and understands how to answer with information from retrieved documents and encoded knowledge as a medical expert does. We release our data and code for training our framework components and model weights (7B and 13B) to enhance capabilities in biomedical and clinical domains.

As large language models (LLMs) gain popularity among speakers of diverse languages, we believe that it is crucial to benchmark them to better understand model behaviors, failures, and limitations in languages beyond English. In this work, we evaluate LLM APIs (ChatGPT, GPT-3, and GPT-4) on the Japanese national medical licensing examinations from the past five years, including the current year. Our team comprises native Japanese-speaking NLP researchers and a practicing cardiologist based in Japan. Our experiments show that GPT-4 outperforms ChatGPT and GPT-3 and passes all six years of the exams, highlighting LLMs' potential in a language that is typologically distant from English. However, our evaluation also exposes critical limitations of the current LLM APIs. First, LLMs sometimes select prohibited choices that should be strictly avoided in medical practice in Japan, such as suggesting euthanasia. Further, our analysis shows that the API costs are generally higher and the maximum context size is smaller for Japanese because of the way non-Latin scripts are currently tokenized in the pipeline. We release our benchmark as Igaku QA as well as all model outputs and exam metadata. We hope that our results and benchmark will spur progress on more diverse applications of LLMs. Our benchmark is available at https://github.com/jungokasai/IgakuQA.

Large language models (LLMs) have recently emerged as a powerful tool for a wide range of language generation tasks. Nevertheless, this progress has been slower in Arabic. In this work, we focus on the task of generating stories from LLMs. For our training, we use stories acquired through machine translation (MT) as well as GPT-4. For the MT data, we develop a careful pipeline that ensures we acquire high-quality stories. For our GPT-41 data, we introduce crafted prompts that allow us to generate data well-suited to the Arabic context in both Modern Standard Arabic (MSA) and two Arabic dialects (Egyptian and Moroccan). For example, we generate stories tailored to various Arab countries on a wide host of topics. Our manual evaluation shows that our model fine-tuned on these training datasets can generate coherent stories that adhere to our instructions. We also conduct an extensive automatic and human evaluation comparing our models against state-of-the-art proprietary and open-source models. Our datasets and models will be made publicly available at https: //github.com/UBC-NLP/arastories.

A story premise succinctly defines a story's main idea, foundation, and trajectory. It serves as the initial trigger in automatic story generation. Existing sources of story premises are limited by a lack of diversity, uneven quality, and high costs that make them difficult to scale. In response, we introduce Modular Story Premise Synthesis (MoPS) which breaks down story premises into modules like background and persona for automated design and generation. MoPS consists of three phases: (1) Precollect a consistent set of candidates for each module to form a nested dictionary. (2) Extract a key path from the nested dictionary as the premise design. (3) Instruct an LLM to integrate the design into a coherent premise sentence. Thorough evaluations demonstrate that our synthesized premises excel in diversity, fascination, completeness, and originality compared to those induced from large language models and captured from public story datasets. Similarly, the extended novels and scripts generated from our premises also exhibit higher quality. In supplementary materials, we provide the MoPS code suite, along with 7.6k generated premises and 1k extended stories. Code: https://github.com/GAIR-NLP/MoPS.

Multilingual pre-trained models (mPLMs) have shown impressive performance on cross-lingual transfer tasks. However, the transfer performance is often hindered when a low-resource target language is written in a different script than the high-resource source language, even though the two languages may be related or share parts of their vocabularies. Inspired by recent work that uses transliteration to address this problem, our paper proposes a transliteration-based post-pretraining alignment (PPA) method aiming to improve the cross-lingual alignment between languages using diverse scripts. We select two areal language groups, Mediterranean-Amharic-Farsi and South+East Asian Languages, wherein the languages are mutually influenced but use different scripts. We apply our method to these language groups and conduct extensive experiments on a spectrum of downstream tasks. The results show that after PPA, models consistently outperform the original model (up to 50% for some tasks) in English-centric transfer. In addition, when we use languages other than English as sources in transfer, our method obtains even larger improvements. We will make our code and models publicly available at https://github.com/cisnlp/Transliteration-PPA.

This paper presents a solution for the Multilingual Text Detoxification task in the PAN-2024 competition of the SmurfCat team. Using data augmentation through machine translation and a special filtering procedure, we collected an additional multilingual parallel dataset for text detoxification. Using the obtained data, we fine-tuned several multilingual sequence-to-sequence models, such as mT0 and Aya, on a text detoxification task. We applied the ORPO alignment technique to the final model. Our final model has only 3.7 billion parameters and achieves state-of-the-art results for the Ukrainian language and near state-of-the-art results for other languages. In the competition, our team achieved first place in the automated evaluation with a score of 0.52 and second place in the final human evaluation with a score of 0.74.

Grammatical Error Detection and Correction (GEC) tools have proven useful for native speakers and second language learners. Developing such tools requires a large amount of parallel, annotated data, which is unavailable for most languages. Synthetic data generation is a common practice to overcome the scarcity of such data. However, it is not straightforward for morphologically rich languages like Turkish due to complex writing rules that require phonological, morphological, and syntactic information. In this work, we present a flexible and extensible synthetic data generation pipeline for Turkish covering more than 20 expert-curated grammar and spelling rules (a.k.a., writing rules) implemented through complex transformation functions. Using this pipeline, we derive 130,000 high-quality parallel sentences from professionally edited articles. Additionally, we create a more realistic test set by manually annotating a set of movie reviews. We implement three baselines formulating the task as i) neural machine translation, ii) sequence tagging, and iii) prefix tuning with a pretrained decoder-only model, achieving strong results. Furthermore, we perform exhaustive experiments on out-of-domain datasets to gain insights on the transferability and robustness of the proposed approaches. Our results suggest that our corpus, GECTurk, is high-quality and allows knowledge transfer for the out-of-domain setting. To encourage further research on Turkish GEC, we release our datasets, baseline models, and the synthetic data generation pipeline at https://github.com/GGLAB-KU/gecturk.

We present the Brain Treebank, a large-scale dataset of electrophysiological neural responses, recorded from intracranial probes while 10 subjects watched one or more Hollywood movies. Subjects watched on average 2.6 Hollywood movies, for an average viewing time of 4.3 hours, and a total of 43 hours. The audio track for each movie was transcribed with manual corrections. Word onsets were manually annotated on spectrograms of the audio track for each movie. Each transcript was automatically parsed and manually corrected into the universal dependencies (UD) formalism, assigning a part of speech to every word and a dependency parse to every sentence. In total, subjects heard over 38,000 sentences (223,000 words), while they had on average 168 electrodes implanted. This is the largest dataset of intracranial recordings featuring grounded naturalistic language, one of the largest English UD treebanks in general, and one of only a few UD treebanks aligned to multimodal features. We hope that this dataset serves as a bridge between linguistic concepts, perception, and their neural representations. To that end, we present an analysis of which electrodes are sensitive to language features while also mapping out a rough time course of language processing across these electrodes. The Brain Treebank is available at https://BrainTreebank.dev/

Indonesia is rich in languages and scripts. However, most NLP progress has been made using romanized text. In this paper, we present NusaAksara, a novel public benchmark for Indonesian languages that includes their original scripts. Our benchmark covers both text and image modalities and encompasses diverse tasks such as image segmentation, OCR, transliteration, translation, and language identification. Our data is constructed by human experts through rigorous steps. NusaAksara covers 8 scripts across 7 languages, including low-resource languages not commonly seen in NLP benchmarks. Although unsupported by Unicode, the Lampung script is included in this dataset. We benchmark our data across several models, from LLMs and VLMs such as GPT-4o, Llama 3.2, and Aya 23 to task-specific systems such as PP-OCR and LangID, and show that most NLP technologies cannot handle Indonesia's local scripts, with many achieving near-zero performance.

We describe GEMBA, a GPT-based metric for assessment of translation quality, which works both with a reference translation and without. In our evaluation, we focus on zero-shot prompting, comparing four prompt variants in two modes, based on the availability of the reference. We investigate nine versions of GPT models, including ChatGPT and GPT-4. We show that our method for translation quality assessment only works with GPT~3.5 and larger models. Comparing to results from WMT22's Metrics shared task, our method achieves state-of-the-art accuracy in both modes when compared to MQM-based human labels. Our results are valid on the system level for all three WMT22 Metrics shared task language pairs, namely English into German, English into Russian, and Chinese into English. This provides a first glimpse into the usefulness of pre-trained, generative large language models for quality assessment of translations. We publicly release all our code and prompt templates used for the experiments described in this work, as well as all corresponding scoring results, to allow for external validation and reproducibility.

We introduce MathWriting, the largest online handwritten mathematical expression dataset to date. It consists of 230k human-written samples and an additional 400k synthetic ones. MathWriting can also be used for offline HME recognition and is larger than all existing offline HME datasets like IM2LATEX-100K. We introduce a benchmark based on MathWriting data in order to advance research on both online and offline HME recognition.

We present VideoPoet, a language model capable of synthesizing high-quality video, with matching audio, from a large variety of conditioning signals. VideoPoet employs a decoder-only transformer architecture that processes multimodal inputs -- including images, videos, text, and audio. The training protocol follows that of Large Language Models (LLMs), consisting of two stages: pretraining and task-specific adaptation. During pretraining, VideoPoet incorporates a mixture of multimodal generative objectives within an autoregressive Transformer framework. The pretrained LLM serves as a foundation that can be adapted for a range of video generation tasks. We present empirical results demonstrating the model's state-of-the-art capabilities in zero-shot video generation, specifically highlighting VideoPoet's ability to generate high-fidelity motions. Project page: http://sites.research.google/videopoet/

Writing down lyrics for human consumption involves not only accurately capturing word sequences, but also incorporating punctuation and formatting for clarity and to convey contextual information. This includes song structure, emotional emphasis, and contrast between lead and background vocals. While automatic lyrics transcription (ALT) systems have advanced beyond producing unstructured strings of words and are able to draw on wider context, ALT benchmarks have not kept pace and continue to focus exclusively on words. To address this gap, we introduce Jam-ALT, a comprehensive lyrics transcription benchmark. The benchmark features a complete revision of the JamendoLyrics dataset, in adherence to industry standards for lyrics transcription and formatting, along with evaluation metrics designed to capture and assess the lyric-specific nuances, laying the foundation for improving the readability of lyrics. We apply the benchmark to recent transcription systems and present additional error analysis, as well as an experimental comparison with a classical music dataset.

In this paper, we present AISHELL-3, a large-scale and high-fidelity multi-speaker Mandarin speech corpus which could be used to train multi-speaker Text-to-Speech (TTS) systems. The corpus contains roughly 85 hours of emotion-neutral recordings spoken by 218 native Chinese mandarin speakers. Their auxiliary attributes such as gender, age group and native accents are explicitly marked and provided in the corpus. Accordingly, transcripts in Chinese character-level and pinyin-level are provided along with the recordings. We present a baseline system that uses AISHELL-3 for multi-speaker Madarin speech synthesis. The multi-speaker speech synthesis system is an extension on Tacotron-2 where a speaker verification model and a corresponding loss regarding voice similarity are incorporated as the feedback constraint. We aim to use the presented corpus to build a robust synthesis model that is able to achieve zero-shot voice cloning. The system trained on this dataset also generalizes well on speakers that are never seen in the training process. Objective evaluation results from our experiments show that the proposed multi-speaker synthesis system achieves high voice similarity concerning both speaker embedding similarity and equal error rate measurement. The dataset, baseline system code and generated samples are available online.

We introduce Biomed-Enriched, a biomedical text dataset constructed from PubMed via a two-stage annotation process. In the first stage, a large language model annotates 400K paragraphs from PubMed scientific articles, assigning scores for their type (review, study, clinical case, other), domain (clinical, biomedical, other), and educational quality. The educational quality score (rated 1 to 5) estimates how useful a paragraph is for college-level learning. These annotations are then used to fine-tune a small language model, which propagates the labels across the full PMC-OA corpus. The resulting metadata allows us to extract refined subsets, including 2M clinical case paragraphs with over 450K high-quality ones from articles with commercial-use licenses, and to construct several variants via quality filtering and domain upsampling. Clinical text is typically difficult to access due to privacy constraints, as hospital records cannot be publicly shared. Hence, our dataset provides an alternative large-scale, openly available collection of clinical cases from PubMed, making it a valuable resource for biomedical and clinical NLP. Preliminary continual-pretraining experiments with OLMo2 suggest these curated subsets enable targeted improvements, with clinical upsampling boosting performance by ~5% on MMLU ProfMed and educational quality filtering improving MedQA and MedMCQA by ~1%. Combinations of these techniques led to faster convergence, reaching same performance with a third of training tokens, indicating potential for more efficient and effective biomedical pretraining strategies.

The RNA structure-function relationship has recently garnered significant attention within the deep learning community, promising to grow in importance as nucleic acid structure models advance. However, the absence of standardized and accessible benchmarks for deep learning on RNA 3D structures has impeded the development of models for RNA functional characteristics. In this work, we introduce a set of seven benchmarking datasets for RNA structure-function prediction, designed to address this gap. Our library builds on the established Python library rnaglib, and offers easy data distribution and encoding, splitters and evaluation methods, providing a convenient all-in-one framework for comparing models. Datasets are implemented in a fully modular and reproducible manner, facilitating for community contributions and customization. Finally, we provide initial baseline results for all tasks using a graph neural network. Source code: https://github.com/cgoliver/rnaglib Documentation: https://rnaglib.org

The principles of automation and innovation serve as foundational elements for advancement in contemporary science and technology. Here, we introduce Pygen, an automation platform designed to empower researchers, technologists, and hobbyists to bring abstract ideas to life as core, usable software tools written in Python. Pygen leverages the immense power of autoregressive large language models to augment human creativity during the ideation, iteration, and innovation process. By combining state-of-the-art language models with open-source code generation technologies, Pygen has significantly reduced the manual overhead of tool development. From a user prompt, Pygen automatically generates Python packages for a complete workflow from concept to package generation and documentation. The findings of our work show that Pygen considerably enhances the researcher's productivity by enabling the creation of resilient, modular, and well-documented packages for various specialized purposes. We employ a prompt enhancement approach to distill the user's package description into increasingly specific and actionable. While being inherently an open-ended task, we have evaluated the generated packages and the documentation using Human Evaluation, LLM-based evaluation, and CodeBLEU, with detailed results in the results section. Furthermore, we documented our results, analyzed the limitations, and suggested strategies to alleviate them. Pygen is our vision of ethical automation, a framework that promotes inclusivity, accessibility, and collaborative development. This project marks the beginning of a large-scale effort towards creating tools where intelligent agents collaborate with humans to improve scientific and technological development substantially. Our code and generated examples are open-sourced at [https://github.com/GitsSaikat/Pygen]

Representation and learning of commonsense knowledge is one of the foundational problems in the quest to enable deep language understanding. This issue is particularly challenging for understanding casual and correlational relationships between events. While this topic has received a lot of interest in the NLP community, research has been hindered by the lack of a proper evaluation framework. This paper attempts to address this problem with a new framework for evaluating story understanding and script learning: the 'Story Cloze Test'. This test requires a system to choose the correct ending to a four-sentence story. We created a new corpus of ~50k five-sentence commonsense stories, ROCStories, to enable this evaluation. This corpus is unique in two ways: (1) it captures a rich set of causal and temporal commonsense relations between daily events, and (2) it is a high quality collection of everyday life stories that can also be used for story generation. Experimental evaluation shows that a host of baselines and state-of-the-art models based on shallow language understanding struggle to achieve a high score on the Story Cloze Test. We discuss these implications for script and story learning, and offer suggestions for deeper language understanding.

Procedural videos, exemplified by recipe demonstrations, are instrumental in conveying step-by-step instructions. However, understanding such videos is challenging as it involves the precise localization of steps and the generation of textual instructions. Manually annotating steps and writing instructions is costly, which limits the size of current datasets and hinders effective learning. Leveraging large but noisy video-transcript datasets for pre-training can boost performance but demands significant computational resources. Furthermore, transcripts contain irrelevant content and differ in style from human-written instructions. To mitigate these issues, we propose a novel technique, Sieve-&-Swap, to automatically generate high-quality training data for the recipe domain: (i) Sieve: filters irrelevant transcripts and (ii) Swap: acquires high-quality text by replacing transcripts with human-written instruction from a text-only recipe dataset. The resulting dataset is three orders of magnitude smaller than current web-scale datasets but enables efficient training of large-scale models. Alongside Sieve-&-Swap, we propose Procedure Transformer (ProcX), a model for end-to-end step localization and instruction generation for procedural videos. When pre-trained on our curated dataset, this model achieves state-of-the-art performance on YouCook2 and Tasty while using a fraction of the training data. We have released code and dataset.

Due to reasons of convenience and lack of tech literacy, transliteration (i.e., Romanizing native scripts instead of using localization tools) is eminently prevalent in the context of low-resource languages such as Sinhala, which have their own writing script. In this study, our focus is on Romanized Sinhala transliteration. We propose two methods to address this problem: Our baseline is a rule-based method, which is then compared against our second method where we approach the transliteration problem as a sequence-to-sequence task akin to the established Neural Machine Translation (NMT) task. For the latter, we propose a Transformer-based Encode-Decoder solution. We witnessed that the Transformer-based method could grab many ad-hoc patterns within the Romanized scripts compared to the rule-based method. The code base associated with this paper is available on GitHub - https://github.com/kasunw22/Sinhala-Transliterator/

Large language models, particularly GPT-3, are able to produce high quality summaries of general domain news articles in few- and zero-shot settings. However, it is unclear if such models are similarly capable in more specialized, high-stakes domains such as biomedicine. In this paper, we enlist domain experts (individuals with medical training) to evaluate summaries of biomedical articles generated by GPT-3, given zero supervision. We consider both single- and multi-document settings. In the former, GPT-3 is tasked with generating regular and plain-language summaries of articles describing randomized controlled trials; in the latter, we assess the degree to which GPT-3 is able to synthesize evidence reported across a collection of articles. We design an annotation scheme for evaluating model outputs, with an emphasis on assessing the factual accuracy of generated summaries. We find that while GPT-3 is able to summarize and simplify single biomedical articles faithfully, it struggles to provide accurate aggregations of findings over multiple documents. We release all data and annotations used in this work.

The earliest extant Chinese characters originate from oracle bone inscriptions, which are closely related to other East Asian languages. These inscriptions hold immense value for anthropology and archaeology. However, deciphering oracle bone script remains a formidable challenge, with only approximately 1,600 of the over 4,500 extant characters elucidated to date. Further scholarly investigation is required to comprehensively understand this ancient writing system. Artificial Intelligence technology is a promising avenue for deciphering oracle bone characters, particularly concerning their evolution. However, one of the challenges is the lack of datasets mapping the evolution of these characters over time. In this study, we systematically collected ancient characters from authoritative texts and websites spanning six historical stages: Oracle Bone Characters - OBC (15th century B.C.), Bronze Inscriptions - BI (13th to 221 B.C.), Seal Script - SS (11th to 8th centuries B.C.), Spring and Autumn period Characters - SAC (770 to 476 B.C.), Warring States period Characters - WSC (475 B.C. to 221 B.C.), and Clerical Script - CS (221 B.C. to 220 A.D.). Subsequently, we constructed an extensive dataset, namely EVolution Oracle Bone Characters (EVOBC), consisting of 229,170 images representing 13,714 distinct character categories. We conducted validation and simulated deciphering on the constructed dataset, and the results demonstrate its high efficacy in aiding the study of oracle bone script. This openly accessible dataset aims to digitalize ancient Chinese scripts across multiple eras, facilitating the decipherment of oracle bone script by examining the evolution of glyph forms.

We present a system for automatic diacritization of Hebrew text. The system combines modern neural models with carefully curated declarative linguistic knowledge and comprehensive manually constructed tables and dictionaries. Besides providing state of the art diacritization accuracy, the system also supports an interface for manual editing and correction of the automatic output, and has several features which make it particularly useful for preparation of scientific editions of Hebrew texts. The system supports Modern Hebrew, Rabbinic Hebrew and Poetic Hebrew. The system is freely accessible for all use at http://nakdanpro.dicta.org.il.

In this paper, we aim to develop an open-source, multilingual language model for medicine, that the benefits a wider, linguistically diverse audience from different regions. In general, we present the contribution from the following aspects: first, for multilingual medical-specific adaptation, we construct a new multilingual medical corpus, that contains approximately 25.5B tokens encompassing 6 main languages, termed as MMedC, that enables auto-regressive training for existing general LLMs. second, to monitor the development of multilingual LLMs in medicine, we propose a new multilingual medical multi-choice question-answering benchmark with rationale, termed as MMedBench; third, we have assessed a number of popular, opensource large language models (LLMs) on our benchmark, along with those further auto-regressive trained on MMedC, as a result, our final model, termed as MMedLM 2, with only 7B parameters, achieves superior performance compared to all other open-source models, even rivaling GPT-4 on MMedBench. We will make the resources publicly available, including code, model weights, and datasets.

In this paper we discuss an in-progress work on the development of a speech corpus for four low-resource Indo-Aryan languages -- Awadhi, Bhojpuri, Braj and Magahi using the field methods of linguistic data collection. The total size of the corpus currently stands at approximately 18 hours (approx. 4-5 hours each language) and it is transcribed and annotated with grammatical information such as part-of-speech tags, morphological features and Universal dependency relationships. We discuss our methodology for data collection in these languages, most of which was done in the middle of the COVID-19 pandemic, with one of the aims being to generate some additional income for low-income groups speaking these languages. In the paper, we also discuss the results of the baseline experiments for automatic speech recognition system in these languages.

Although multilingual language models exhibit impressive cross-lingual transfer capabilities on unseen languages, the performance on downstream tasks is impacted when there is a script disparity with the languages used in the multilingual model's pre-training data. Using transliteration offers a straightforward yet effective means to align the script of a resource-rich language with a target language, thereby enhancing cross-lingual transfer capabilities. However, for mixed languages, this approach is suboptimal, since only a subset of the language benefits from the cross-lingual transfer while the remainder is impeded. In this work, we focus on Maltese, a Semitic language, with substantial influences from Arabic, Italian, and English, and notably written in Latin script. We present a novel dataset annotated with word-level etymology. We use this dataset to train a classifier that enables us to make informed decisions regarding the appropriate processing of each token in the Maltese language. We contrast indiscriminate transliteration or translation to mixing processing pipelines that only transliterate words of Arabic origin, thereby resulting in text with a mixture of scripts. We fine-tune the processed data on four downstream tasks and show that conditional transliteration based on word etymology yields the best results, surpassing fine-tuning with raw Maltese or Maltese processed with non-selective pipelines.

TypeScript and Python are two programming languages that support optional type annotations, which are useful but tedious to introduce and maintain. This has motivated automated type prediction: given an untyped program, produce a well-typed output program. Large language models (LLMs) are promising for type prediction, but there are challenges: fill-in-the-middle performs poorly, programs may not fit into the context window, generated types may not type check, and it is difficult to measure how well-typed the output program is. We address these challenges by building OpenTau, a search-based approach for type prediction that leverages large language models. We propose a new metric for type prediction quality, give a tree-based program decomposition that searches a space of generated types, and present fill-in-the-type fine-tuning for LLMs. We evaluate our work with a new dataset for TypeScript type prediction, and show that 47.4% of files type check (14.5% absolute improvement) with an overall rate of 3.3 type errors per file. All code, data, and models are available at: https://github.com/GammaTauAI/opentau.

We introduce SONAR, a new multilingual and multimodal fixed-size sentence embedding space. Our single text encoder, covering 200 languages, substantially outperforms existing sentence embeddings such as LASER3 and LabSE on the xsim and xsim++ multilingual similarity search tasks. Speech segments can be embedded in the same SONAR embedding space using language-specific speech encoders trained in a teacher-student setting on speech transcription data. Our encoders outperform existing speech encoders on similarity search tasks. We also provide a text decoder for 200 languages, which allows us to perform text-to-text and speech-to-text machine translation, including for zero-shot language and modality combinations. Our text-to-text results are competitive compared to the state-of-the-art NLLB~1B model, despite the fixed-size bottleneck representation. Our zero-shot speech-to-text translation results compare favorably with strong supervised baselines such as Whisper.

GPT-3 and GPT-4 models are powerful, achieving high performance on a variety of Natural Language Processing tasks. However, there is a relative lack of detailed published analysis of their performance on the task of grammatical error correction (GEC). To address this, we perform experiments testing the capabilities of a GPT-3.5 model (text-davinci-003) and a GPT-4 model (gpt-4-0314) on major GEC benchmarks. We compare the performance of different prompts in both zero-shot and few-shot settings, analyzing intriguing or problematic outputs encountered with different prompt formats. We report the performance of our best prompt on the BEA-2019 and JFLEG datasets, finding that the GPT models can perform well in a sentence-level revision setting, with GPT-4 achieving a new high score on the JFLEG benchmark. Through human evaluation experiments, we compare the GPT models' corrections to source, human reference, and baseline GEC system sentences and observe differences in editing strategies and how they are scored by human raters.

Generative models guided by text prompts are increasingly becoming more popular. However, no text-to-MIDI models currently exist, mostly due to the lack of a captioned MIDI dataset. This work aims to enable research that combines LLMs with symbolic music by presenting the first large-scale MIDI dataset with text captions that is openly available: MidiCaps. MIDI (Musical Instrument Digital Interface) files are a widely used format for encoding musical information. Their structured format captures the nuances of musical composition and has practical applications by music producers, composers, musicologists, as well as performers. Inspired by recent advancements in captioning techniques applied to various domains, we present a large-scale curated dataset of over 168k MIDI files accompanied by textual descriptions. Each MIDI caption succinctly describes the musical content, encompassing tempo, chord progression, time signature, instruments present, genre and mood; thereby facilitating multi-modal exploration and analysis. The dataset contains a mix of various genres, styles, and complexities, offering a rich source for training and evaluating models for tasks such as music information retrieval, music understanding and cross-modal translation. We provide detailed statistics about the dataset and have assessed the quality of the captions in an extensive listening study. We anticipate that this resource will stimulate further research in the intersection of music and natural language processing, fostering advancements in both fields.

Extracting patient information from unstructured text is a critical task in health decision-support and clinical research. Large language models (LLMs) have shown the potential to accelerate clinical curation via few-shot in-context learning, in contrast to supervised learning which requires much more costly human annotations. However, despite drastic advances in modern LLMs such as GPT-4, they still struggle with issues regarding accuracy and interpretability, especially in mission-critical domains such as health. Here, we explore a general mitigation framework using self-verification, which leverages the LLM to provide provenance for its own extraction and check its own outputs. This is made possible by the asymmetry between verification and generation, where the latter is often much easier than the former. Experimental results show that our method consistently improves accuracy for various LLMs in standard clinical information extraction tasks. Additionally, self-verification yields interpretations in the form of a short text span corresponding to each output, which makes it very efficient for human experts to audit the results, paving the way towards trustworthy extraction of clinical information in resource-constrained scenarios. To facilitate future research in this direction, we release our code and prompts.

Optical Music Recognition is a field that has progressed significantly, bringing accurate systems that transcribe effectively music scores into digital formats. Despite this, there are still several limitations that hinder OMR from achieving its full potential. Specifically, state of the art OMR still depends on multi-stage pipelines for performing full-page transcription, as well as it has only been demonstrated in monophonic cases, leaving behind very relevant engravings. In this work, we present the Sheet Music Transformer++, an end-to-end model that is able to transcribe full-page polyphonic music scores without the need of a previous Layout Analysis step. This is done thanks to an extensive curriculum learning-based pretraining with synthetic data generation. We conduct several experiments on a full-page extension of a public polyphonic transcription dataset. The experimental outcomes confirm that the model is competent at transcribing full-page pianoform scores, marking a noteworthy milestone in end-to-end OMR transcription.

Recommendation is the task of ranking items (e.g. movies or products) according to individual user needs. Current systems rely on collaborative filtering and content-based techniques, which both require structured training data. We propose a framework for recommendation with off-the-shelf pretrained language models (LM) that only used unstructured text corpora as training data. If a user u liked Matrix and Inception, we construct a textual prompt, e.g. "Movies like Matrix, Inception, {<m{>}"} to estimate the affinity between u and m with LM likelihood. We motivate our idea with a corpus analysis, evaluate several prompt structures, and we compare LM-based recommendation with standard matrix factorization trained on different data regimes. The code for our experiments is publicly available (https://colab.research.google.com/drive/1f1mlZ-FGaLGdo5rPzxf3vemKllbh2esT?usp=sharing).

Motivation: The gut microbiota has recently emerged as a key factor that underpins certain connections between diet and human health. A tremendous amount of knowledge has been amassed from experimental studies on diet, human metabolism and microbiome. However, this evidence remains mostly buried in scientific publications, and biomedical literature mining in this domain remains scarce. We developed DiMB-RE, a comprehensive corpus annotated with 15 entity types (e.g., Nutrient, Microorganism) and 13 relation types (e.g., increases, improves) capturing diet-microbiome associations. We also trained and evaluated state-of-the-art natural language processing (NLP) models for named entity, trigger, and relation extraction as well as factuality detection using DiMB-RE. Results: DiMB-RE consists of 14,450 entities and 4,206 relationships from 165 articles. While NLP models performed reasonably well for named entity recognition (0.760 F_{1}), end-to-end relation extraction performance was modest (0.356 F_{1}), partly due to missed entities and triggers as well as cross-sentence relations. Conclusions: To our knowledge, DiMB-RE is largest and most diverse dataset focusing on diet-microbiome interactions. It can serve as a benchmark corpus for biomedical literature mining. Availability: DiMB-RE and the NLP models are available at https://github.com/ScienceNLP-Lab/DiMB-RE.

We present a corpus professionally annotated for grammatical error correction (GEC) and fluency edits in the Ukrainian language. To the best of our knowledge, this is the first GEC corpus for the Ukrainian language. We collected texts with errors (20,715 sentences) from a diverse pool of contributors, including both native and non-native speakers. The data cover a wide variety of writing domains, from text chats and essays to formal writing. Professional proofreaders corrected and annotated the corpus for errors relating to fluency, grammar, punctuation, and spelling. This corpus can be used for developing and evaluating GEC systems in Ukrainian. More generally, it can be used for researching multilingual and low-resource NLP, morphologically rich languages, document-level GEC, and fluency correction. The corpus is publicly available at https://github.com/grammarly/ua-gec

Machine learning methods have proven useful in transcribing historical data. However, results from even highly accurate methods require manual verification and correction. Such manual review can be time-consuming and expensive, therefore the objective of this paper was to make it more efficient. Previously, we used machine learning to transcribe 2.3 million handwritten occupation codes from the Norwegian 1950 census with high accuracy (97%). We manually reviewed the 90,000 (3%) codes with the lowest model confidence. We allocated those 90,000 codes to human reviewers, who used our annotation tool to review the codes. To assess reviewer agreement, some codes were assigned to multiple reviewers. We then analyzed the review results to understand the relationship between accuracy improvements and effort. Additionally, we interviewed the reviewers to improve the workflow. The reviewers corrected 62.8% of the labels and agreed with the model label in 31.9% of cases. About 0.2% of the images could not be assigned a label, while for 5.1% the reviewers were uncertain, or they assigned an invalid label. 9,000 images were independently reviewed by multiple reviewers, resulting in an agreement of 86.43% and disagreement of 8.96%. We learned that our automatic transcription is biased towards the most frequent codes, with a higher degree of misclassification for the lowest frequency codes. Our interview findings show that the reviewers did internal quality control and found our custom tool well-suited. So, only one reviewer is needed, but they should report uncertainty.

Multimodal AI has the potential to significantly enhance document-understanding tasks, such as processing receipts, understanding workflows, extracting data from documents, and summarizing reports. Code generation tasks that require long-structured outputs can also be enhanced by multimodality. Despite this, their use in commercial applications is often limited due to limited access to training data and restrictive licensing, which hinders open access. To address these limitations, we introduce BigDocs-7.5M, a high-quality, open-access dataset comprising 7.5 million multimodal documents across 30 tasks. We use an efficient data curation process to ensure our data is high-quality and license-permissive. Our process emphasizes accountability, responsibility, and transparency through filtering rules, traceable metadata, and careful content analysis. Additionally, we introduce BigDocs-Bench, a benchmark suite with 10 novel tasks where we create datasets that reflect real-world use cases involving reasoning over Graphical User Interfaces (GUI) and code generation from images. Our experiments show that training with BigDocs-Bench improves average performance up to 25.8% over closed-source GPT-4o in document reasoning and structured output tasks such as Screenshot2HTML or Image2Latex generation. Finally, human evaluations showed a preference for outputs from models trained on BigDocs over GPT-4o. This suggests that BigDocs can help both academics and the open-source community utilize and improve AI tools to enhance multimodal capabilities and document reasoning. The project is hosted at https://bigdocs.github.io .

Punctuation plays a vital role in structuring meaning, yet current models often struggle to restore it accurately in transcripts of spontaneous speech, especially in the presence of disfluencies such as false starts and backtracking. These limitations hinder the performance of downstream tasks like translation, text to speech, summarization, etc. where sentence boundaries are critical for preserving quality. In this work, we introduce Cadence, a generalist punctuation restoration model adapted from a pretrained large language model. Cadence is designed to handle both clean written text and highly spontaneous spoken transcripts. It surpasses the previous state of the art in performance while expanding support from 14 to all 22 Indian languages and English. We conduct a comprehensive analysis of model behavior across punctuation types and language families, identifying persistent challenges under domain shift and with rare punctuation marks. Our findings demonstrate the efficacy of utilizing pretrained language models for multilingual punctuation restoration and highlight Cadence practical value for low resource NLP pipelines at scale.

We present lambeq, the first high-level Python library for Quantum Natural Language Processing (QNLP). The open-source toolkit offers a detailed hierarchy of modules and classes implementing all stages of a pipeline for converting sentences to string diagrams, tensor networks, and quantum circuits ready to be used on a quantum computer. lambeq supports syntactic parsing, rewriting and simplification of string diagrams, ansatz creation and manipulation, as well as a number of compositional models for preparing quantum-friendly representations of sentences, employing various degrees of syntax sensitivity. We present the generic architecture and describe the most important modules in detail, demonstrating the usage with illustrative examples. Further, we test the toolkit in practice by using it to perform a number of experiments on simple NLP tasks, implementing both classical and quantum pipelines.

An open-source Mandarin speech corpus called AISHELL-1 is released. It is by far the largest corpus which is suitable for conducting the speech recognition research and building speech recognition systems for Mandarin. The recording procedure, including audio capturing devices and environments are presented in details. The preparation of the related resources, including transcriptions and lexicon are described. The corpus is released with a Kaldi recipe. Experimental results implies that the quality of audio recordings and transcriptions are promising.

In this paper, we present a database of emotional speech intended to be open-sourced and used for synthesis and generation purpose. It contains data for male and female actors in English and a male actor in French. The database covers 5 emotion classes so it could be suitable to build synthesis and voice transformation systems with the potential to control the emotional dimension in a continuous way. We show the data's efficiency by building a simple MLP system converting neutral to angry speech style and evaluate it via a CMOS perception test. Even though the system is a very simple one, the test show the efficiency of the data which is promising for future work.

Medical systematic reviews can be very costly and resource intensive. We explore how Large Language Models (LLMs) can support and be trained to perform literature screening when provided with a detailed set of selection criteria. Specifically, we instruction tune LLaMA and Guanaco models to perform abstract screening for medical systematic reviews. Our best model, Bio-SIEVE, outperforms both ChatGPT and trained traditional approaches, and generalises better across medical domains. However, there remains the challenge of adapting the model to safety-first scenarios. We also explore the impact of multi-task training with Bio-SIEVE-Multi, including tasks such as PICO extraction and exclusion reasoning, but find that it is unable to match single-task Bio-SIEVE's performance. We see Bio-SIEVE as an important step towards specialising LLMs for the biomedical systematic review process and explore its future developmental opportunities. We release our models, code and a list of DOIs to reconstruct our dataset for reproducibility.

This paper is dedicated to the design and evaluation of the first AMR parser tailored for clinical notes. Our objective was to facilitate the precise transformation of the clinical notes into structured AMR expressions, thereby enhancing the interpretability and usability of clinical text data at scale. Leveraging the colon cancer dataset from the Temporal Histories of Your Medical Events (THYME) corpus, we adapted a state-of-the-art AMR parser utilizing continuous training. Our approach incorporates data augmentation techniques to enhance the accuracy of AMR structure predictions. Notably, through this learning strategy, our parser achieved an impressive F1 score of 88% on the THYME corpus's colon cancer dataset. Moreover, our research delved into the efficacy of data required for domain adaptation within the realm of clinical notes, presenting domain adaptation data requirements for AMR parsing. This exploration not only underscores the parser's robust performance but also highlights its potential in facilitating a deeper understanding of clinical narratives through structured semantic representations.

Tumor documentation in Germany is largely done manually, requiring reading patient records and entering data into structured databases. Large language models (LLMs) could potentially enhance this process by improving efficiency and reliability. This evaluation tests eleven different open source LLMs with sizes ranging from 1-70 billion model parameters on three basic tasks of the tumor documentation process: identifying tumor diagnoses, assigning ICD-10 codes, and extracting the date of first diagnosis. For evaluating the LLMs on these tasks, a dataset of annotated text snippets based on anonymized doctors' notes from urology was prepared. Different prompting strategies were used to investigate the effect of the number of examples in few-shot prompting and to explore the capabilities of the LLMs in general. The models Llama 3.1 8B, Mistral 7B, and Mistral NeMo 12 B performed comparably well in the tasks. Models with less extensive training data or having fewer than 7 billion parameters showed notably lower performance, while larger models did not display performance gains. Examples from a different medical domain than urology could also improve the outcome in few-shot prompting, which demonstrates the ability of LLMs to handle tasks needed for tumor documentation. Open source LLMs show a strong potential for automating tumor documentation. Models from 7-12 billion parameters could offer an optimal balance between performance and resource efficiency. With tailored fine-tuning and well-designed prompting, these models might become important tools for clinical documentation in the future. The code for the evaluation is available from https://github.com/stefan-m-lenz/UroLlmEval. We also release the dataset as a new valuable resource that addresses the shortage of authentic and easily accessible benchmarks in German-language medical NLP.

This short technical report demonstrates a simple technique that yields state of the art results in medical image-text matching tasks. We analyze the use of OpenAI's CLIP, a general image-text matching model, and observe that CLIP's limited textual input size has negative impact on downstream performance in the medical domain where encoding longer textual contexts is often required. We thus train and release ClipMD, which is trained with a simple sliding window technique to encode textual captions. ClipMD was tested on two medical image-text datasets and compared with other image-text matching models. The results show that ClipMD outperforms other models on both datasets by a large margin. We make our code and pretrained model publicly available.

TextDescriptives is a Python package for calculating a large variety of metrics from text. It is built on top of spaCy and can be easily integrated into existing workflows. The package has already been used for analysing the linguistic stability of clinical texts, creating features for predicting neuropsychiatric conditions, and analysing linguistic goals of primary school students. This paper describes the package and its features.

Descriptive video service (DVS) provides linguistic descriptions of movies and allows visually impaired people to follow a movie along with their peers. Such descriptions are by design mainly visual and thus naturally form an interesting data source for computer vision and computational linguistics. In this work we propose a novel dataset which contains transcribed DVS, which is temporally aligned to full length HD movies. In addition we also collected the aligned movie scripts which have been used in prior work and compare the two different sources of descriptions. In total the Movie Description dataset contains a parallel corpus of over 54,000 sentences and video snippets from 72 HD movies. We characterize the dataset by benchmarking different approaches for generating video descriptions. Comparing DVS to scripts, we find that DVS is far more visual and describes precisely what is shown rather than what should happen according to the scripts created prior to movie production.

To assess the effectiveness of any medical intervention, researchers must conduct a time-intensive and highly manual literature review. NLP systems can help to automate or assist in parts of this expensive process. In support of this goal, we release MS^2 (Multi-Document Summarization of Medical Studies), a dataset of over 470k documents and 20k summaries derived from the scientific literature. This dataset facilitates the development of systems that can assess and aggregate contradictory evidence across multiple studies, and is the first large-scale, publicly available multi-document summarization dataset in the biomedical domain. We experiment with a summarization system based on BART, with promising early results. We formulate our summarization inputs and targets in both free text and structured forms and modify a recently proposed metric to assess the quality of our system's generated summaries. Data and models are available at https://github.com/allenai/ms2

The rise of capabilities expressed by large language models has been quickly followed by the integration of the same complex systems into application level logic. Algorithms, programs, systems, and companies are built around structured prompting to black box models where the majority of the design and implementation lies in capturing and quantifying the `agent mode'. The standard way to shape a closed language model is to prime it for a specific task with a tailored prompt, often initially handwritten by a human. The textual prompts co-evolve with the codebase, taking shape over the course of project life as artifacts which must be reviewed and maintained, just as the traditional code files might be. Unlike traditional code, we find that prompts do not receive effective static testing and linting to prevent runtime issues. In this work, we present a novel dataset called PromptSet, with more than 61,000 unique developer prompts used in open source Python programs. We perform analysis on this dataset and introduce the notion of a static linter for prompts. Released with this publication is a HuggingFace dataset and a Github repository to recreate collection and processing efforts, both under the name pisterlabs/promptset.

The Norwegian Parliamentary Speech Corpus (NPSC) is a speech dataset with recordings of meetings from Stortinget, the Norwegian parliament. It is the first, publicly available dataset containing unscripted, Norwegian speech designed for training of automatic speech recognition (ASR) systems. The recordings are manually transcribed and annotated with language codes and speakers, and there are detailed metadata about the speakers. The transcriptions exist in both normalized and non-normalized form, and non-standardized words are explicitly marked and annotated with standardized equivalents. To test the usefulness of this dataset, we have compared an ASR system trained on the NPSC with a baseline system trained on only manuscript-read speech. These systems were tested on an independent dataset containing spontaneous, dialectal speech. The NPSC-trained system performed significantly better, with a 22.9% relative improvement in word error rate (WER). Moreover, training on the NPSC is shown to have a "democratizing" effect in terms of dialects, as improvements are generally larger for dialects with higher WER from the baseline system.

The BigCode community, an open-scientific collaboration working on the responsible development of Large Language Models for Code (Code LLMs), introduces StarCoder and StarCoderBase: 15.5B parameter models with 8K context length, infilling capabilities and fast large-batch inference enabled by multi-query attention. StarCoderBase is trained on 1 trillion tokens sourced from The Stack, a large collection of permissively licensed GitHub repositories with inspection tools and an opt-out process. We fine-tuned StarCoderBase on 35B Python tokens, resulting in the creation of StarCoder. We perform the most comprehensive evaluation of Code LLMs to date and show that StarCoderBase outperforms every open Code LLM that supports multiple programming languages and matches or outperforms the OpenAI code-cushman-001 model. Furthermore, StarCoder outperforms every model that is fine-tuned on Python, can be prompted to achieve 40\% pass@1 on HumanEval, and still retains its performance on other programming languages. We take several important steps towards a safe open-access model release, including an improved PII redaction pipeline and a novel attribution tracing tool, and make the StarCoder models publicly available under a more commercially viable version of the Open Responsible AI Model license.

The task of annotating data into concise summaries poses a significant challenge across various domains, frequently requiring the allocation of significant time and specialized knowledge by human experts. Despite existing efforts to use large language models for annotation tasks, significant problems such as limited applicability to unlabeled data, the absence of self-supervised methods, and the lack of focus on complex structured data still persist. In this work, we propose a GPT self-supervision annotation method, which embodies a generating-recovering paradigm that leverages the one-shot learning capabilities of the Generative Pretrained Transformer (GPT). The proposed approach comprises a one-shot tuning phase followed by a generation phase. In the one-shot tuning phase, we sample a data from the support set as part of the prompt for GPT to generate a textual summary, which is then used to recover the original data. The alignment score between the recovered and original data serves as a self-supervision navigator to refine the process. In the generation stage, the optimally selected one-shot sample serves as a template in the prompt and is applied to generating summaries from challenging datasets. The annotation performance is evaluated by tuning several human feedback reward networks and by calculating alignment scores between original and recovered data at both sentence and structure levels. Our self-supervised annotation method consistently achieves competitive scores, convincingly demonstrating its robust strength in various data-to-summary annotation tasks.

Medical information retrieval (MIR) is essential for retrieving relevant medical knowledge from diverse sources, including electronic health records, scientific literature, and medical databases. However, achieving effective zero-shot dense retrieval in the medical domain poses substantial challenges due to the lack of relevance-labeled data. In this paper, we introduce a novel approach called Self-Learning Hypothetical Document Embeddings (SL-HyDE) to tackle this issue. SL-HyDE leverages large language models (LLMs) as generators to generate hypothetical documents based on a given query. These generated documents encapsulate key medical context, guiding a dense retriever in identifying the most relevant documents. The self-learning framework progressively refines both pseudo-document generation and retrieval, utilizing unlabeled medical corpora without requiring any relevance-labeled data. Additionally, we present the Chinese Medical Information Retrieval Benchmark (CMIRB), a comprehensive evaluation framework grounded in real-world medical scenarios, encompassing five tasks and ten datasets. By benchmarking ten models on CMIRB, we establish a rigorous standard for evaluating medical information retrieval systems. Experimental results demonstrate that SL-HyDE significantly surpasses existing methods in retrieval accuracy while showcasing strong generalization and scalability across various LLM and retriever configurations. CMIRB data and evaluation code are publicly available at: https://github.com/CMIRB-benchmark/CMIRB.

Building high-quality datasets for specialized tasks is a time-consuming and resource-intensive process that often requires specialized domain knowledge. We propose Corpus Retrieval and Augmentation for Fine-Tuning (CRAFT), a method for generating synthetic datasets, given a small number of user-written few-shots that demonstrate the task to be performed. Given the few-shot examples, we use large-scale public web-crawled corpora and similarity-based document retrieval to find other relevant human-written documents. Lastly, instruction-tuned large language models (LLMs) augment the retrieved documents into custom-formatted task samples, which then can be used for fine-tuning. We demonstrate that CRAFT can efficiently generate large-scale task-specific training datasets for four diverse tasks: biology question-answering (QA), medicine QA and commonsense QA as well as summarization. Our experiments show that CRAFT-based models outperform or achieve comparable performance to general LLMs for QA tasks, while CRAFT-based summarization models outperform models trained on human-curated data by 46 preference points.

The pretraining of state-of-the-art large language models now requires trillions of words of text, which is orders of magnitude more than available for the vast majority of languages. While including text in more than one language is an obvious way to acquire more pretraining data, multilinguality is often seen as a curse, and most model training efforts continue to focus near-exclusively on individual large languages. We believe that multilinguality can be a blessing and that it should be possible to substantially improve over the capabilities of monolingual models for small languages through multilingual training. In this study, we introduce Poro 34B, a 34 billion parameter model trained for 1 trillion tokens of Finnish, English, and programming languages, and demonstrate that a multilingual training approach can produce a model that not only substantially advances over the capabilities of existing models for Finnish, but also excels in translation and is competitive in its class in generating English and programming languages. We release the model parameters, scripts, and data under open licenses at https://huggingface.co/LumiOpen/Poro-34B.

The Charlie Parker Omnibook is a cornerstone of jazz music education, described by pianist Ethan Iverson as "the most important jazz education text ever published". In this work we propose a new transcription pipeline and explore the extent to which state of the art music technology is able to reconstruct these scores directly from the audio without human intervention. Our pipeline includes: a newly trained source separation model for saxophone, a new MIDI transcription model for solo saxophone and an adaptation of an existing MIDI-to-score method for monophonic instruments. To assess this pipeline we also provide an enhanced dataset of Charlie Parker transcriptions as score-audio pairs with accurate MIDI alignments and downbeat annotations. This represents a challenging new benchmark for automatic audio-to-score transcription that we hope will advance research into areas beyond transcribing audio-to-MIDI alone. Together, these form another step towards producing scores that musicians can use directly, without the need for onerous corrections or revisions. To facilitate future research, all model checkpoints and data are made available to download along with code for the transcription pipeline. Improvements in our modular pipeline could one day make the automatic transcription of complex jazz solos a routine possibility, thereby enriching the resources available for music education and preservation.

JoyTTS is an end-to-end spoken chatbot that combines large language models (LLM) with text-to-speech (TTS) technology, featuring voice cloning capabilities. This project is built upon the open-source MiniCPM-o and CosyVoice2 models and trained on 2000 hours of conversational data. We have also provided the complete training code to facilitate further development and optimization by the community. On the testing machine seed-tts-zh, it achieves a SS (speaker similarity) score of 0.73 and a WER (Word Error Rate) of 5.09. The code and models, along with training and inference scripts, are available at https://github.com/jdh-algo/JoyTTS.git.

To scale neural speech synthesis to various real-world languages, we present a multilingual end-to-end framework that maps byte inputs to spectrograms, thus allowing arbitrary input scripts. Besides strong results on 40+ languages, the framework demonstrates capabilities to adapt to new languages under extreme low-resource and even few-shot scenarios of merely 40s transcribed recording, without the need of per-language resources like lexicon, extra corpus, auxiliary models, or linguistic expertise, thus ensuring scalability. While it retains satisfactory intelligibility and naturalness matching rich-resource models. Exhaustive comparative and ablation studies are performed to reveal the potential of the framework for low-resource languages. Furthermore, we propose a novel method to extract language-specific sub-networks in a multilingual model for a better understanding of its mechanism.

The use of subword embedding has proved to be a major innovation in Neural Machine Translation (NMT). It helps NMT to learn better context vectors for Low Resource Languages (LRLs) so as to predict the target words by better modelling the morphologies of the two languages and also the morphosyntax transfer. Even so, their performance for translation in Indian language to Indian language scenario is still not as good as for resource-rich languages. One reason for this is the relative morphological richness of Indian languages, while another is that most of them fall into the extremely low resource or zero-shot categories. Since most major Indian languages use Indic or Brahmi origin scripts, the text written in them is highly phonetic in nature and phonetically similar in terms of abstract letters and their arrangements. We use these characteristics of Indian languages and their scripts to propose an approach based on common multilingual Latin-based encodings (WX notation) that take advantage of language similarity while addressing the morphological complexity issue in NMT. These multilingual Latin-based encodings in NMT, together with Byte Pair Embedding (BPE) allow us to better exploit their phonetic and orthographic as well as lexical similarities to improve the translation quality by projecting different but similar languages on the same orthographic-phonetic character space. We verify the proposed approach by demonstrating experiments on similar language pairs (Gujarati-Hindi, Marathi-Hindi, Nepali-Hindi, Maithili-Hindi, Punjabi-Hindi, and Urdu-Hindi) under low resource conditions. The proposed approach shows an improvement in a majority of cases, in one case as much as ~10 BLEU points compared to baseline techniques for similar language pairs. We also get up to ~1 BLEU points improvement on distant and zero-shot language pairs.

Biological protocols are fundamental to reproducible and safe life science research. While LLMs excel on general tasks, their systematic evaluation on these highly specialized, accuracy-critical, and inherently procedural texts remains limited. In this work, we present BioProBench, the first large-scale, integrated multi-task benchmark for biological protocol understanding and reasoning. While limited benchmarks have touched upon specific aspects like protocol QA, BioProBench provides a comprehensive suite of five core tasks: Protocol Question Answering, Step Ordering, Error Correction, Protocol Generation, and Protocol Reasoning, enabling a holistic evaluation of LLMs on procedural biological texts. Built upon 27K original protocols, it yields nearly 556K high-quality structured instances. We evaluate 12 mainstream open/closed-source LLMs on BioProBench. Experimental results reveal that while top models preform well on surface understanding tasks, struggle significantly with deep reasoning and structured generation tasks like ordering and generation. Furthermore, model comparisons reveal diverse performance: certain open-source models approach closed-source levels on some tasks, yet bio-specific small models lag behind general LLMs, indicating limitations on complex procedural content. Overall, our findings underscore that procedural reasoning within biological protocols represents a significant challenge for current LLMs. BioProBench serves as a standardized framework to diagnose these specific limitations and guide the development of AI systems better equipped for safely automating complex scientific procedures. The code and data are available at: https://github.com/YuyangSunshine/bioprotocolbench and https://huggingface.co/datasets/GreatCaptainNemo/BioProBench.

We introduce mEdIT, a multi-lingual extension to CoEdIT -- the recent state-of-the-art text editing models for writing assistance. mEdIT models are trained by fine-tuning multi-lingual large, pre-trained language models (LLMs) via instruction tuning. They are designed to take instructions from the user specifying the attributes of the desired text in the form of natural language instructions, such as Grammatik korrigieren (German) or Parafrasee la oraci\'on (Spanish). We build mEdIT by curating data from multiple publicly available human-annotated text editing datasets for three text editing tasks (Grammatical Error Correction (GEC), Text Simplification, and Paraphrasing) across diverse languages belonging to six different language families. We detail the design and training of mEdIT models and demonstrate their strong performance on many multi-lingual text editing benchmarks against other multilingual LLMs. We also find that mEdIT generalizes effectively to new languages over multilingual baselines. We publicly release our data, code, and trained models at https://github.com/vipulraheja/medit.

Scholarship on generative pretraining (GPT) remains acutely Anglocentric, leaving serious gaps in our understanding of the whole class of autoregressive models. For example, we have little knowledge about the potential of these models and their societal impacts in diverse linguistic and cultural settings. We alleviate this issue for Arabic, a wide collection of languages and dialectal varieties with more than 400 million population, by introducing JASMINE. JASMINE is a suite of powerful Arabic autoregressive Transformer language models ranging in size between 300 million-6.7 billion parameters pretrained on a large and diverse dataset (~ 235 GB of text). We also carefully design and release a comprehensive benchmark for both automated and human evaluation of Arabic autoregressive models, with coverage of potential social biases, harms, and toxicity. Using our novel benchmark, we evaluate JASMINE extensively showing powerful performance intrinsically as well as in few-shot learning on a wide range of NLP tasks. We aim to responsibly release our models and evaluation benchmark with interested researchers, along with code for experimenting with them.

The development of domain-specific language models has significantly advanced natural language processing applications in various specialized fields, particularly in biomedicine. However, the focus has largely been on English-language models, leaving a gap for less-resourced languages such as Italian. This paper introduces Igea, the first decoder-only language model designed explicitly for biomedical text generation in Italian. Built on the Minerva model and continually pretrained on a diverse corpus of Italian medical texts, Igea is available in three model sizes: 350 million, 1 billion, and 3 billion parameters. The models aim to balance computational efficiency and performance, addressing the challenges of managing the peculiarities of medical terminology in Italian. We evaluate Igea using a mix of in-domain biomedical corpora and general-purpose benchmarks, highlighting its efficacy and retention of general knowledge even after the domain-specific training. This paper discusses the model's development and evaluation, providing a foundation for future advancements in Italian biomedical NLP.

In this paper, we study pre-trained sequence-to-sequence models for a group of related languages, with a focus on Indic languages. We present IndicBART, a multilingual, sequence-to-sequence pre-trained model focusing on 11 Indic languages and English. IndicBART utilizes the orthographic similarity between Indic scripts to improve transfer learning between similar Indic languages. We evaluate IndicBART on two NLG tasks: Neural Machine Translation (NMT) and extreme summarization. Our experiments on NMT and extreme summarization show that a model specific to related languages like IndicBART is competitive with large pre-trained models like mBART50 despite being significantly smaller. It also performs well on very low-resource translation scenarios where languages are not included in pre-training or fine-tuning. Script sharing, multilingual training, and better utilization of limited model capacity contribute to the good performance of the compact IndicBART model.

Generative AI has demonstrated unprecedented creativity in the field of computer vision, yet such phenomena have not been observed in natural language processing. In particular, large language models (LLMs) can hardly produce written works at the level of human experts due to the extremely high complexity of literature writing. In this paper, we present HoLLMwood, an automated framework for unleashing the creativity of LLMs and exploring their potential in screenwriting, which is a highly demanding task. Mimicking the human creative process, we assign LLMs to different roles involved in the real-world scenario. In addition to the common practice of treating LLMs as {Writer}, we also apply LLMs as {Editor}, who is responsible for providing feedback and revision advice to {Writer}. Besides, to enrich the characters and deepen the plots, we introduce a role-playing mechanism and adopt LLMs as {Actors} that can communicate and interact with each other. Evaluations on automatically generated screenplays show that HoLLMwood substantially outperforms strong baselines in terms of coherence, relevance, interestingness and overall quality.

Multimodal large language models (LLMs) have demonstrated impressive capabilities in generating high-quality images from textual instructions. However, their performance in generating scientific images--a critical application for accelerating scientific progress--remains underexplored. In this work, we address this gap by introducing ScImage, a benchmark designed to evaluate the multimodal capabilities of LLMs in generating scientific images from textual descriptions. ScImage assesses three key dimensions of understanding: spatial, numeric, and attribute comprehension, as well as their combinations, focusing on the relationships between scientific objects (e.g., squares, circles). We evaluate five models, GPT-4o, Llama, AutomaTikZ, Dall-E, and StableDiffusion, using two modes of output generation: code-based outputs (Python, TikZ) and direct raster image generation. Additionally, we examine four different input languages: English, German, Farsi, and Chinese. Our evaluation, conducted with 11 scientists across three criteria (correctness, relevance, and scientific accuracy), reveals that while GPT-4o produces outputs of decent quality for simpler prompts involving individual dimensions such as spatial, numeric, or attribute understanding in isolation, all models face challenges in this task, especially for more complex prompts.

We introduce Spivavtor, a dataset, and instruction-tuned models for text editing focused on the Ukrainian language. Spivavtor is the Ukrainian-focused adaptation of the English-only CoEdIT model. Similar to CoEdIT, Spivavtor performs text editing tasks by following instructions in Ukrainian. This paper describes the details of the Spivavtor-Instruct dataset and Spivavtor models. We evaluate Spivavtor on a variety of text editing tasks in Ukrainian, such as Grammatical Error Correction (GEC), Text Simplification, Coherence, and Paraphrasing, and demonstrate its superior performance on all of them. We publicly release our best-performing models and data as resources to the community to advance further research in this space.

The Russian Drug Reaction Corpus (RuDReC) is a new partially annotated corpus of consumer reviews in Russian about pharmaceutical products for the detection of health-related named entities and the effectiveness of pharmaceutical products. The corpus itself consists of two parts, the raw one and the labelled one. The raw part includes 1.4 million health-related user-generated texts collected from various Internet sources, including social media. The labelled part contains 500 consumer reviews about drug therapy with drug- and disease-related information. Labels for sentences include health-related issues or their absence. The sentences with one are additionally labelled at the expression level for identification of fine-grained subtypes such as drug classes and drug forms, drug indications, and drug reactions. Further, we present a baseline model for named entity recognition (NER) and multi-label sentence classification tasks on this corpus. The macro F1 score of 74.85% in the NER task was achieved by our RuDR-BERT model. For the sentence classification task, our model achieves the macro F1 score of 68.82% gaining 7.47% over the score of BERT model trained on Russian data. We make the RuDReC corpus and pretrained weights of domain-specific BERT models freely available at https://github.com/cimm-kzn/RuDReC

Large Language Models (LLMs) excel in data synthesis but can be inaccurate in domain-specific tasks, which retrieval-augmented generation (RAG) systems address by leveraging user-provided data. However, RAGs require optimization in both retrieval and generation stages, which can affect output quality. In this paper, we present LLM-Ref, a writing assistant tool that aids researchers in writing articles from multiple source documents with enhanced reference synthesis and handling capabilities. Unlike traditional RAG systems that use chunking and indexing, our tool retrieves and generates content directly from text paragraphs. This method facilitates direct reference extraction from the generated outputs, a feature unique to our tool. Additionally, our tool employs iterative response generation, effectively managing lengthy contexts within the language model's constraints. Compared to baseline RAG-based systems, our approach achieves a 3.25times to 6.26times increase in Ragas score, a comprehensive metric that provides a holistic view of a RAG system's ability to produce accurate, relevant, and contextually appropriate responses. This improvement shows our method enhances the accuracy and contextual relevance of writing assistance tools.

Drug toxicity remains a major challenge in pharmaceutical development. Recent machine learning models have improved in silico toxicity prediction, but their reliance on annotated data and lack of interpretability limit their applicability. This limits their ability to capture organ-specific toxicities driven by complex biological mechanisms. Large language models (LLMs) offer a promising alternative through step-by-step reasoning and integration of textual data, yet prior approaches lack biological context and transparent rationale. To address this issue, we propose CoTox, a novel framework that integrates LLM with chain-of-thought (CoT) reasoning for multi-toxicity prediction. CoTox combines chemical structure data, biological pathways, and gene ontology (GO) terms to generate interpretable toxicity predictions through step-by-step reasoning. Using GPT-4o, we show that CoTox outperforms both traditional machine learning and deep learning model. We further examine its performance across various LLMs to identify where CoTox is most effective. Additionally, we find that representing chemical structures with IUPAC names, which are easier for LLMs to understand than SMILES, enhances the model's reasoning ability and improves predictive performance. To demonstrate its practical utility in drug development, we simulate the treatment of relevant cell types with drug and incorporated the resulting biological context into the CoTox framework. This approach allow CoTox to generate toxicity predictions aligned with physiological responses, as shown in case study. This result highlights the potential of LLM-based frameworks to improve interpretability and support early-stage drug safety assessment. The code and prompt used in this work are available at https://github.com/dmis-lab/CoTox.

Progress in speech processing has been facilitated by shared datasets and benchmarks. Historically these have focused on automatic speech recognition (ASR), speaker identification, or other lower-level tasks. Interest has been growing in higher-level spoken language understanding tasks, including using end-to-end models, but there are fewer annotated datasets for such tasks. At the same time, recent work shows the possibility of pre-training generic representations and then fine-tuning for several tasks using relatively little labeled data. We propose to create a suite of benchmark tasks for Spoken Language Understanding Evaluation (SLUE) consisting of limited-size labeled training sets and corresponding evaluation sets. This resource would allow the research community to track progress, evaluate pre-trained representations for higher-level tasks, and study open questions such as the utility of pipeline versus end-to-end approaches. We present the first phase of the SLUE benchmark suite, consisting of named entity recognition, sentiment analysis, and ASR on the corresponding datasets. We focus on naturally produced (not read or synthesized) speech, and freely available datasets. We provide new transcriptions and annotations on subsets of the VoxCeleb and VoxPopuli datasets, evaluation metrics and results for baseline models, and an open-source toolkit to reproduce the baselines and evaluate new models.

The advent of instruction-tuned language models that convincingly mimic human writing poses a significant risk of abuse. However, such abuse may be counteracted with the ability to detect whether a piece of text was composed by a language model rather than a human author. Some previous approaches to this problem have relied on supervised methods by training on corpora of confirmed human- and machine- written documents. Unfortunately, model under-specification poses an unavoidable challenge for neural network-based detectors, making them brittle in the face of data shifts, such as the release of newer language models producing still more fluent text than the models used to train the detectors. Other approaches require access to the models that may have generated a document in question, which is often impractical. In light of these challenges, we pursue a fundamentally different approach not relying on samples from language models of concern at training time. Instead, we propose to leverage representations of writing style estimated from human-authored text. Indeed, we find that features effective at distinguishing among human authors are also effective at distinguishing human from machine authors, including state-of-the-art large language models like Llama-2, ChatGPT, and GPT-4. Furthermore, given a handful of examples composed by each of several specific language models of interest, our approach affords the ability to predict which model generated a given document. The code and data to reproduce our experiments are available at https://github.com/LLNL/LUAR/tree/main/fewshot_iclr2024.

Added toxicity in the context of translation refers to the fact of producing a translation output with more toxicity than there exists in the input. In this paper, we present MinTox which is a novel pipeline to identify added toxicity and mitigate this issue which works at inference time. MinTox uses a toxicity detection classifier which is multimodal (speech and text) and works in languages at scale. The mitigation method is applied to languages at scale and directly in text outputs. MinTox is applied to SEAMLESSM4T, which is the latest multimodal and massively multilingual machine translation system. For this system, MinTox achieves significant added toxicity mitigation across domains, modalities and language directions. MinTox manages to approximately filter out from 25% to 95% of added toxicity (depending on the modality and domain) while keeping translation quality.

During times of increasing antibiotic resistance and the spread of infectious diseases like COVID-19, it is important to classify genes related to antibiotic resistance. As natural language processing has advanced with transformer-based language models, many language models that learn characteristics of nucleotide sequences have also emerged. These models show good performance in classifying various features of nucleotide sequences. When classifying nucleotide sequences, not only the sequence itself, but also various background knowledge is utilized. In this study, we use not only a nucleotide sequence-based language model but also a text language model based on PubMed articles to reflect more biological background knowledge in the model. We propose a method to fine-tune the nucleotide sequence language model and the text language model based on various databases of antibiotic resistance genes. We also propose an LLM-based augmentation technique to supplement the data and an ensemble method to effectively combine the two models. We also propose a benchmark for evaluating the model. Our method achieved better performance than the nucleotide sequence language model in the drug resistance class prediction.

Training and evaluating language models increasingly requires the construction of meta-datasets --diverse collections of curated data with clear provenance. Natural language prompting has recently lead to improved zero-shot generalization by transforming existing, supervised datasets into a diversity of novel pretraining tasks, highlighting the benefits of meta-dataset curation. While successful in general-domain text, translating these data-centric approaches to biomedical language modeling remains challenging, as labeled biomedical datasets are significantly underrepresented in popular data hubs. To address this challenge, we introduce BigBIO a community library of 126+ biomedical NLP datasets, currently covering 12 task categories and 10+ languages. BigBIO facilitates reproducible meta-dataset curation via programmatic access to datasets and their metadata, and is compatible with current platforms for prompt engineering and end-to-end few/zero shot language model evaluation. We discuss our process for task schema harmonization, data auditing, contribution guidelines, and outline two illustrative use cases: zero-shot evaluation of biomedical prompts and large-scale, multi-task learning. BigBIO is an ongoing community effort and is available at https://github.com/bigscience-workshop/biomedical

Recent advancements in conversational large language models (LLMs), such as ChatGPT, have demonstrated remarkable promise in various domains, including drug discovery. However, existing works mainly focus on investigating the capabilities of conversational LLMs on chemical reaction and retrosynthesis. While drug editing, a critical task in the drug discovery pipeline, remains largely unexplored. To bridge this gap, we propose ChatDrug, a framework to facilitate the systematic investigation of drug editing using LLMs. ChatDrug jointly leverages a prompt module, a retrieval and domain feedback (ReDF) module, and a conversation module to streamline effective drug editing. We empirically show that ChatDrug reaches the best performance on 33 out of 39 drug editing tasks, encompassing small molecules, peptides, and proteins. We further demonstrate, through 10 case studies, that ChatDrug can successfully identify the key substructures (e.g., the molecule functional groups, peptide motifs, and protein structures) for manipulation, generating diverse and valid suggestions for drug editing. Promisingly, we also show that ChatDrug can offer insightful explanations from a domain-specific perspective, enhancing interpretability and enabling informed decision-making. This research sheds light on the potential of ChatGPT and conversational LLMs for drug editing. It paves the way for a more efficient and collaborative drug discovery pipeline, contributing to the advancement of pharmaceutical research and development.

This paper introduces TRIDIS (Tria Digita Scribunt), an open-source corpus of medieval and early modern manuscripts. TRIDIS aggregates multiple legacy collections (all published under open licenses) and incorporates large metadata descriptions. While prior publications referenced some portions of this corpus, here we provide a unified overview with a stronger focus on its constitution. We describe (i) the narrative, chronological, and editorial background of each major sub-corpus, (ii) its semi-diplomatic transcription rules (expansion, normalization, punctuation), (iii) a strategy for challenging out-of-domain test splits driven by outlier detection in a joint embedding space, and (iv) preliminary baseline experiments using TrOCR and MiniCPM2.5 comparing random and outlier-based test partitions. Overall, TRIDIS is designed to stimulate joint robust Handwritten Text Recognition (HTR) and Named Entity Recognition (NER) research across medieval and early modern textual heritage.

We present and evaluate a suite of proof-of-concept (PoC), structured workflow prompts designed to elicit human-like hierarchical reasoning while guiding Large Language Models (LLMs) in the high-level semantic and linguistic analysis of scholarly manuscripts. The prompts target two non-trivial analytical tasks within academic summaries (abstracts and conclusions): identifying unsubstantiated claims (informational integrity) and flagging semantically confusing ambiguous pronoun references (linguistic clarity). We conducted a systematic, multi-run evaluation on two frontier models (Gemini Pro 2.5 Pro and ChatGPT Plus o3) under varied context conditions. Our results for the informational integrity task reveal a significant divergence in model performance: while both models successfully identified an unsubstantiated head of a noun phrase (95% success), ChatGPT consistently failed (0% success) to identify an unsubstantiated adjectival modifier that Gemini correctly flagged (95% success), raising a question regarding the potential influence of the target's syntactic role. For the linguistic analysis task, both models performed well (80-90% success) with full manuscript context. Surprisingly, in a summary-only setting, Gemini's performance was substantially degraded, while ChatGPT achieved a perfect (100%) success rate. Our findings suggest that while structured prompting is a viable methodology for complex textual analysis, prompt performance may be highly dependent on the interplay between the model, task type, and context, highlighting the need for rigorous, model-specific testing.

This paper introduces SynthDoc, a novel synthetic document generation pipeline designed to enhance Visual Document Understanding (VDU) by generating high-quality, diverse datasets that include text, images, tables, and charts. Addressing the challenges of data acquisition and the limitations of existing datasets, SynthDoc leverages publicly available corpora and advanced rendering tools to create a comprehensive and versatile dataset. Our experiments, conducted using the Donut model, demonstrate that models trained with SynthDoc's data achieve superior performance in pre-training read tasks and maintain robustness in downstream tasks, despite language inconsistencies. The release of a benchmark dataset comprising 5,000 image-text pairs not only showcases the pipeline's capabilities but also provides a valuable resource for the VDU community to advance research and development in document image recognition. This work significantly contributes to the field by offering a scalable solution to data scarcity and by validating the efficacy of end-to-end models in parsing complex, real-world documents.

Models for text-to-image synthesis, such as DALL-E~2 and Stable Diffusion, have recently drawn a lot of interest from academia and the general public. These models are capable of producing high-quality images that depict a variety of concepts and styles when conditioned on textual descriptions. However, these models adopt cultural characteristics associated with specific Unicode scripts from their vast amount of training data, which may not be immediately apparent. We show that by simply inserting single non-Latin characters in a textual description, common models reflect cultural stereotypes and biases in their generated images. We analyze this behavior both qualitatively and quantitatively, and identify a model's text encoder as the root cause of the phenomenon. Additionally, malicious users or service providers may try to intentionally bias the image generation to create racist stereotypes by replacing Latin characters with similarly-looking characters from non-Latin scripts, so-called homoglyphs. To mitigate such unnoticed script attacks, we propose a novel homoglyph unlearning method to fine-tune a text encoder, making it robust against homoglyph manipulations.

Summaries generated from medical conversations can improve recall and understanding of care plans for patients and reduce documentation burden for doctors. Recent advancements in automatic speech recognition (ASR) and natural language understanding (NLU) offer potential solutions to generate these summaries automatically, but rigorous quantitative baselines for benchmarking research in this domain are lacking. In this paper, we bridge this gap for two tasks: classifying utterances from medical conversations according to (i) the SOAP section and (ii) the speaker role. Both are fundamental building blocks along the path towards an end-to-end, automated SOAP note for medical conversations. We provide details on a dataset that contains human and ASR transcriptions of medical conversations and corresponding machine learning optimized SOAP notes. We then present a systematic analysis in which we adapt an existing deep learning architecture to the two aforementioned tasks. The results suggest that modelling context in a hierarchical manner, which captures both word and utterance level context, yields substantial improvements on both classification tasks. Additionally, we develop and analyze a modular method for adapting our model to ASR output.

Recent work has shown the feasibility and benefit of bootstrapping an integrated sequence-to-sequence (Seq2Seq) linguistic frontend from a traditional pipeline-based frontend for text-to-speech (TTS). To overcome the fixed lexical coverage of bootstrapping training data, previous work has proposed to leverage easily accessible transcribed speech audio as an additional training source for acquiring novel pronunciation knowledge for uncovered words, which relies on an auxiliary ASR model as part of a cumbersome implementation flow. In this work, we propose an alternative method to leverage transcribed speech audio as an additional training source, based on multi-task learning (MTL). Experiments show that, compared to a baseline Seq2Seq frontend, the proposed MTL-based method reduces PER from 2.5% to 1.6% for those word types covered exclusively in transcribed speech audio, achieving a similar performance to the previous method but with a much simpler implementation flow.

In this paper, we introduce the first comprehensive multilingual sign language dataset named Prompt2Sign, which builds from public data including American Sign Language (ASL) and seven others. Our dataset transforms a vast array of videos into a streamlined, model-friendly format, optimized for training with translation models like seq2seq and text2text. Building on this new dataset, we propose SignLLM, the first multilingual Sign Language Production (SLP) model, which includes two novel multilingual SLP modes that allow for the generation of sign language gestures from input text or prompt. Both of the modes can use a new loss and a module based on reinforcement learning, which accelerates the training by enhancing the model's capability to autonomously sample high-quality data. We present benchmark results of SignLLM, which demonstrate that our model achieves state-of-the-art performance on SLP tasks across eight sign languages.

This paper proposes a framework for quantitatively evaluating interactive LLMs such as ChatGPT using publicly available data sets. We carry out an extensive technical evaluation of ChatGPT using 23 data sets covering 8 different common NLP application tasks. We evaluate the multitask, multilingual and multi-modal aspects of ChatGPT based on these data sets and a newly designed multimodal dataset. We find that ChatGPT outperforms LLMs with zero-shot learning on most tasks and even outperforms fine-tuned models on some tasks. We find that it is better at understanding non-Latin script languages than generating them. It is able to generate multimodal content from textual prompts, via an intermediate code generation step. Moreover, we find that ChatGPT is 63.41% accurate on average in 10 different reasoning categories under logical reasoning, non-textual reasoning, and commonsense reasoning, hence making it an unreliable reasoner. It is, for example, better at deductive than inductive reasoning. ChatGPT suffers from hallucination problems like other LLMs and it generates more extrinsic hallucinations from its parametric memory as it does not have access to an external knowledge base. Finally, the interactive feature of ChatGPT enables human collaboration with the underlying LLM to improve its performance, i.e, 8% ROUGE-1 on summarization and 2% ChrF++ on machine translation, in a multi-turn "prompt engineering" fashion. We also release codebase for evaluation set extraction.

Even with various regulations in place across countries and social media platforms (Government of India, 2021; European Parliament and Council of the European Union, 2022, digital abusive speech remains a significant issue. One potential approach to address this challenge is automatic text detoxification, a text style transfer (TST) approach that transforms toxic language into a more neutral or non-toxic form. To date, the availability of parallel corpora for the text detoxification task (Logachevavet al., 2022; Atwell et al., 2022; Dementievavet al., 2024a) has proven to be crucial for state-of-the-art approaches. With this work, we extend parallel text detoxification corpus to new languages -- German, Chinese, Arabic, Hindi, and Amharic -- testing in the extensive multilingual setup TST baselines. Next, we conduct the first of its kind an automated, explainable analysis of the descriptive features of both toxic and non-toxic sentences, diving deeply into the nuances, similarities, and differences of toxicity and detoxification across 9 languages. Finally, based on the obtained insights, we experiment with a novel text detoxification method inspired by the Chain-of-Thoughts reasoning approach, enhancing the prompting process through clustering on relevant descriptive attributes.

Speech conveys more information than just text, as the same word can be uttered in various voices to convey diverse information. Compared to traditional text-to-speech (TTS) methods relying on speech prompts (reference speech) for voice variability, using text prompts (descriptions) is more user-friendly since speech prompts can be hard to find or may not exist at all. TTS approaches based on the text prompt face two challenges: 1) the one-to-many problem, where not all details about voice variability can be described in the text prompt, and 2) the limited availability of text prompt datasets, where vendors and large cost of data labeling are required to write text prompt for speech. In this work, we introduce PromptTTS 2 to address these challenges with a variation network to provide variability information of voice not captured by text prompts, and a prompt generation pipeline to utilize the large language models (LLM) to compose high quality text prompts. Specifically, the variation network predicts the representation extracted from the reference speech (which contains full information about voice) based on the text prompt representation. For the prompt generation pipeline, it generates text prompts for speech with a speech understanding model to recognize voice attributes (e.g., gender, speed) from speech and a large language model to formulate text prompt based on the recognition results. Experiments on a large-scale (44K hours) speech dataset demonstrate that compared to the previous works, PromptTTS 2 generates voices more consistent with text prompts and supports the sampling of diverse voice variability, thereby offering users more choices on voice generation. Additionally, the prompt generation pipeline produces high-quality prompts, eliminating the large labeling cost. The demo page of PromptTTS 2 is available onlinehttps://speechresearch.github.io/prompttts2.

Foundation models (FMs) have exhibited remarkable performance across a wide range of downstream tasks in many domains. Nevertheless, general-purpose FMs often face challenges when confronted with domain-specific problems, due to their limited access to the proprietary training data in a particular domain. In biomedicine, there are various biological modalities, such as molecules, proteins, and cells, which are encoded by the language of life and exhibit significant modality gaps with human natural language. In this paper, we introduce BioMedGPT, an open multimodal generative pre-trained transformer (GPT) for biomedicine, to bridge the gap between the language of life and human natural language. BioMedGPT allows users to easily ``communicate'' with diverse biological modalities through free text, which is the first of its kind. BioMedGPT aligns different biological modalities with natural language via a large generative language model, namely, BioMedGPT-LM. We publish BioMedGPT-10B, which unifies the feature spaces of molecules, proteins, and natural language via encoding and alignment. Through fine-tuning, BioMedGPT-10B outperforms or is on par with human and significantly larger general-purpose foundation models on the biomedical QA task. It also demonstrates promising performance in the molecule QA and protein QA tasks, which could greatly accelerate the discovery of new drugs and therapeutic targets. In addition, BioMedGPT-LM-7B is the first large generative language model based on Llama2 in the biomedical domain, therefore is commercial friendly. Both BioMedGPT-10B and BioMedGPT-LM-7B are open-sourced to the research community. In addition, we publish the datasets that are meticulously curated for the alignment of multi-modalities, i.e., PubChemQA and UniProtQA. All the models, codes, and datasets are available at https://github.com/PharMolix/OpenBioMed.

Recent work has witnessed a paradigm shift from Seq2Seq to Seq2Edit in the field of text editing, with the aim of addressing the slow autoregressive inference problem posed by the former. Despite promising results, Seq2Edit approaches still face several challenges such as inflexibility in generation and difficulty in generalizing to other languages. In this work, we propose a novel non-autoregressive text editing method to circumvent the above issues, by modeling the edit process with latent CTC alignments. We make a crucial extension to CTC by introducing the copy operation into the edit space, thus enabling more efficient management of textual overlap in editing. We conduct extensive experiments on GEC and sentence fusion tasks, showing that our proposed method significantly outperforms existing Seq2Edit models and achieves similar or even better results than Seq2Seq with over 4times speedup. Moreover, it demonstrates good generalizability on German and Russian. In-depth analyses reveal the strengths of our method in terms of the robustness under various scenarios and generating fluent and flexible outputs.

This research explores the integration of large language models (LLMs) into scientific data assimilation, focusing on combustion science as a case study. Leveraging foundational models integrated with Retrieval-Augmented Generation (RAG) framework, the study introduces an approach to process diverse combustion research data, spanning experimental studies, simulations, and literature. The multifaceted nature of combustion research emphasizes the critical role of knowledge processing in navigating and extracting valuable information from a vast and diverse pool of sources. The developed approach minimizes computational and economic expenses while optimizing data privacy and accuracy. It incorporates prompt engineering and offline open-source LLMs, offering user autonomy in selecting base models. The study provides a thorough examination of text segmentation strategies, conducts comparative studies between LLMs, and explores various optimized prompts to demonstrate the effectiveness of the framework. By incorporating an external database, the framework outperforms a conventional LLM in generating accurate responses and constructing robust arguments. Additionally, the study delves into the investigation of optimized prompt templates for the purpose of efficient extraction of scientific literature. The research addresses concerns related to hallucinations and false research articles by introducing a custom workflow developed with a detection algorithm to filter out inaccuracies. Despite identified areas for improvement, the framework consistently delivers accurate domain-specific responses with minimal human oversight. The prompt-agnostic approach introduced holds promise for future deliberations. The study underscores the significance of integrating LLMs and knowledge processing techniques in scientific research, providing a foundation for advancements in data assimilation and utilization.

While large-scale pretrained language models have significantly improved writing assistance functionalities such as autocomplete, more complex and controllable writing assistants have yet to be explored. We leverage advances in language modeling to build an interactive writing assistant that generates and rephrases text according to fine-grained author specifications. Users provide input to our Intent-Guided Assistant (IGA) in the form of text interspersed with tags that correspond to specific rhetorical directives (e.g., adding description or contrast, or rephrasing a particular sentence). We fine-tune a language model on a dataset heuristically-labeled with author intent, which allows IGA to fill in these tags with generated text that users can subsequently edit to their liking. A series of automatic and crowdsourced evaluations confirm the quality of IGA's generated outputs, while a small-scale user study demonstrates author preference for IGA over baseline methods in a creative writing task. We release our dataset, code, and demo to spur further research into AI-assisted writing.

A key initial step in several natural language processing (NLP) tasks involves embedding phrases of text to vectors of real numbers that preserve semantic meaning. To that end, several methods have been recently proposed with impressive results on semantic similarity tasks. However, all of these approaches assume that perfect transcripts are available when generating the embeddings. While this is a reasonable assumption for analysis of written text, it is limiting for analysis of transcribed text. In this paper we investigate the effects of word substitution errors, such as those coming from automatic speech recognition errors (ASR), on several state-of-the-art sentence embedding methods. To do this, we propose a new simulator that allows the experimenter to induce ASR-plausible word substitution errors in a corpus at a desired word error rate. We use this simulator to evaluate the robustness of several sentence embedding methods. Our results show that pre-trained neural sentence encoders are both robust to ASR errors and perform well on textual similarity tasks after errors are introduced. Meanwhile, unweighted averages of word vectors perform well with perfect transcriptions, but their performance degrades rapidly on textual similarity tasks for text with word substitution errors.

Biomedical literature often uses complex language and inaccessible professional terminologies. That is why simplification plays an important role in improving public health literacy. Applying Natural Language Processing (NLP) models to automate such tasks allows for quick and direct accessibility for lay readers. In this work, we investigate the ability of state-of-the-art large language models (LLMs) on the task of biomedical abstract simplification, using the publicly available dataset for plain language adaptation of biomedical abstracts (PLABA). The methods applied include domain fine-tuning and prompt-based learning (PBL) on: 1) Encoder-decoder models (T5, SciFive, and BART), 2) Decoder-only GPT models (GPT-3.5 and GPT-4) from OpenAI and BioGPT, and 3) Control-token mechanisms on BART-based models. We used a range of automatic evaluation metrics, including BLEU, ROUGE, SARI, and BERTscore, and also conducted human evaluations. BART-Large with Control Token (BART-L-w-CT) mechanisms reported the highest SARI score of 46.54 and T5-base reported the highest BERTscore 72.62. In human evaluation, BART-L-w-CTs achieved a better simplicity score over T5-Base (2.9 vs. 2.2), while T5-Base achieved a better meaning preservation score over BART-L-w-CTs (3.1 vs. 2.6). We also categorised the system outputs with examples, hoping this will shed some light for future research on this task. Our code, fine-tuned models, and data splits are available at https://github.com/HECTA-UoM/PLABA-MU

Recent significant improvements in speech and language technologies come both from self-supervised approaches over raw language data as well as various types of explicit supervision. To ensure high-quality processing of spoken data, the most useful type of explicit supervision is still the alignment between the speech signal and its corresponding text transcript, which is a data type that is not available for many languages. In this paper, we present our approach to building large and open speech-and-text-aligned datasets of less-resourced languages based on transcripts of parliamentary proceedings and their recordings. Our starting point are the ParlaMint comparable corpora of transcripts of parliamentary proceedings of 26 national European parliaments. In the pilot run on expanding the ParlaMint corpora with aligned publicly available recordings, we focus on three Slavic languages, namely Croatian, Polish, and Serbian. The main challenge of our approach is the lack of any global alignment between the ParlaMint texts and the available recordings, as well as the sometimes varying data order in each of the modalities, which requires a novel approach in aligning long sequences of text and audio in a large search space. The results of this pilot run are three high-quality datasets that span more than 5,000 hours of speech and accompanying text transcripts. Although these datasets already make a huge difference in the availability of spoken and textual data for the three languages, we want to emphasize the potential of the presented approach in building similar datasets for many more languages.

Interests in the automatic generation of cooking recipes have been growing steadily over the past few years thanks to a large amount of online cooking recipes. We present RecipeGPT, a novel online recipe generation and evaluation system. The system provides two modes of text generations: (1) instruction generation from given recipe title and ingredients; and (2) ingredient generation from recipe title and cooking instructions. Its back-end text generation module comprises a generative pre-trained language model GPT-2 fine-tuned on a large cooking recipe dataset. Moreover, the recipe evaluation module allows the users to conveniently inspect the quality of the generated recipe contents and store the results for future reference. RecipeGPT can be accessed online at https://recipegpt.org/.

Gene expression analysis holds the key to many biomedical discoveries, yet extracting insights from raw transcriptomic data remains formidable due to the complexity of multiple large, semi-structured files and the need for extensive domain expertise. Current automation approaches are often limited by either inflexible workflows that break down in edge cases or by fully autonomous agents that lack the necessary precision for rigorous scientific inquiry. GenoMAS charts a different course by presenting a team of LLM-based scientists that integrates the reliability of structured workflows with the adaptability of autonomous agents. GenoMAS orchestrates six specialized LLM agents through typed message-passing protocols, each contributing complementary strengths to a shared analytic canvas. At the heart of GenoMAS lies a guided-planning framework: programming agents unfold high-level task guidelines into Action Units and, at each juncture, elect to advance, revise, bypass, or backtrack, thereby maintaining logical coherence while bending gracefully to the idiosyncrasies of genomic data. On the GenoTEX benchmark, GenoMAS reaches a Composite Similarity Correlation of 89.13% for data preprocessing and an F_1 of 60.48% for gene identification, surpassing the best prior art by 10.61% and 16.85% respectively. Beyond metrics, GenoMAS surfaces biologically plausible gene-phenotype associations corroborated by the literature, all while adjusting for latent confounders. Code is available at https://github.com/Liu-Hy/GenoMAS.

Recent AIGC systems possess the capability to generate digital multimedia content based on human language instructions, such as text, image and video. However, when it comes to speech, existing methods related to human instruction-to-speech generation exhibit two limitations. Firstly, they require the division of inputs into content prompt (transcript) and description prompt (style and speaker), instead of directly supporting human instruction. This division is less natural in form and does not align with other AIGC models. Secondly, the practice of utilizing an independent description prompt to model speech style, without considering the transcript content, restricts the ability to control speech at a fine-grained level. To address these limitations, we propose VoxInstruct, a novel unified multilingual codec language modeling framework that extends traditional text-to-speech tasks into a general human instruction-to-speech task. Our approach enhances the expressiveness of human instruction-guided speech generation and aligns the speech generation paradigm with other modalities. To enable the model to automatically extract the content of synthesized speech from raw text instructions, we introduce speech semantic tokens as an intermediate representation for instruction-to-content guidance. We also incorporate multiple Classifier-Free Guidance (CFG) strategies into our codec language model, which strengthens the generated speech following human instructions. Furthermore, our model architecture and training strategies allow for the simultaneous support of combining speech prompt and descriptive human instruction for expressive speech synthesis, which is a first-of-its-kind attempt. Codes, models and demos are at: https://github.com/thuhcsi/VoxInstruct.

This research addresses the challenge of training an ASR model for personalized voices with minimal data. Utilizing just 14 minutes of custom audio from a YouTube video, we employ Retrieval-Based Voice Conversion (RVC) to create a custom Common Voice 16.0 corpus. Subsequently, a Cross-lingual Self-supervised Representations (XLSR) Wav2Vec2 model is fine-tuned on this dataset. The developed web-based GUI efficiently transcribes and translates input Hindi videos. By integrating XLSR Wav2Vec2 and mBART, the system aligns the translated text with the video timeline, delivering an accessible solution for multilingual video content transcription and translation for personalized voice.

Summary: GeneFEAST, implemented in Python, is a gene-centric functional enrichment analysis summarisation and visualisation tool that can be applied to large functional enrichment analysis (FEA) results arising from upstream FEA pipelines. It produces a systematic, navigable HTML report, making it easy to identify sets of genes putatively driving multiple enrichments and to explore gene-level quantitative data first used to identify input genes. Further, GeneFEAST can compare FEA results from multiple studies, making it possible, for example, to highlight patterns of gene expression amongst genes commonly differentially expressed in two sets of conditions, and giving rise to shared enrichments under those conditions. GeneFEAST offers a novel, effective way to address the complexities of linking up many overlapping FEA results to their underlying genes and data, advancing gene-centric hypotheses, and providing pivotal information for downstream validation experiments. Availability: GeneFEAST is available at https://github.com/avigailtaylor/GeneFEAST Contact: [email protected]

Without accurate transcription of numerical data in scientific documents, a scientist cannot draw accurate conclusions. Unfortunately, the process of copying numerical data from one paper to another is prone to human error. In this paper, we propose to meet this challenge through the novel task of automatic table verification (AutoTV), in which the objective is to verify the accuracy of numerical data in tables by cross-referencing cited sources. To support this task, we propose a new benchmark, arXiVeri, which comprises tabular data drawn from open-access academic papers on arXiv. We introduce metrics to evaluate the performance of a table verifier in two key areas: (i) table matching, which aims to identify the source table in a cited document that corresponds to a target table, and (ii) cell matching, which aims to locate shared cells between a target and source table and identify their row and column indices accurately. By leveraging the flexible capabilities of modern large language models (LLMs), we propose simple baselines for table verification. Our findings highlight the complexity of this task, even for state-of-the-art LLMs like OpenAI's GPT-4. The code and benchmark will be made publicly available.

This paper introduces a new tool, OccCANINE, to automatically transform occupational descriptions into the HISCO classification system. The manual work involved in processing and classifying occupational descriptions is error-prone, tedious, and time-consuming. We finetune a preexisting language model (CANINE) to do this automatically thereby performing in seconds and minutes what previously took days and weeks. The model is trained on 14 million pairs of occupational descriptions and HISCO codes in 13 different languages contributed by 22 different sources. Our approach is shown to have accuracy, recall and precision above 90 percent. Our tool breaks the metaphorical HISCO barrier and makes this data readily available for analysis of occupational structures with broad applicability in economics, economic history and various related disciplines.

Hospital information systems (HIS) have become an essential part of healthcare institutions and now incorporate prescribing support software. Prescription support software allows for structured information capture, which improves the safety, appropriateness and efficiency of prescriptions and reduces the number of adverse drug events (ADEs). However, such a system increases the amount of time physicians spend at a computer entering information instead of providing medical care. In addition, any new visiting clinician must learn to manage complex interfaces since each HIS has its own interfaces. In this paper, we present a natural language interface for e-prescribing software in the form of a spoken dialogue system accessible on a smartphone. This system allows prescribers to record their prescriptions verbally, a form of interaction closer to their usual practice. The system extracts the formal representation of the prescription ready to be checked by the prescribing software and uses the dialogue to request mandatory information, correct errors or warn of particular situations. Since, to the best of our knowledge, there is no existing voice-based prescription dialogue system, we present the system developed in a low-resource environment, focusing on dialogue modeling, semantic extraction and data augmentation. The system was evaluated in the wild with 55 participants. This evaluation showed that our system has an average prescription time of 66.15 seconds for physicians and 35.64 seconds for other experts, and a task success rate of 76\% for physicians and 72\% for other experts. All evaluation data were recorded and annotated to form PxCorpus, the first spoken drug prescription corpus that has been made fully available to the community (https://doi.org/10.5281/zenodo.6524162).

The paper copes with the task of automatic assessment of second language proficiency from the language learners' spoken responses to test prompts. The task has significant relevance to the field of computer assisted language learning. The approach presented in the paper relies on two separate modules: (1) an automatic speech recognition system that yields text transcripts of the spoken interactions involved, and (2) a multiple classifier system based on deep learners that ranks the transcripts into proficiency classes. Different deep neural network architectures (both feed-forward and recurrent) are specialized over diverse representations of the texts in terms of: a reference grammar, the outcome of probabilistic language models, several word embeddings, and two bag-of-word models. Combination of the individual classifiers is realized either via a probabilistic pseudo-joint model, or via a neural mixture of experts. Using the data of the third Spoken CALL Shared Task challenge, the highest values to date were obtained in terms of three popular evaluation metrics.

Assessing spoken language is challenging, and quantifying pronunciation metrics for machine learning models is even harder. However, for the Holy Quran, this task is simplified by the rigorous recitation rules (tajweed) established by Muslim scholars, enabling highly effective assessment. Despite this advantage, the scarcity of high-quality annotated data remains a significant barrier. In this work, we bridge these gaps by introducing: (1) A 98% automated pipeline to produce high-quality Quranic datasets -- encompassing: Collection of recitations from expert reciters, Segmentation at pause points (waqf) using our fine-tuned wav2vec2-BERT model, Transcription of segments, Transcript verification via our novel Tasmeea algorithm; (2) 850+ hours of audio (~300K annotated utterances); (3) A novel ASR-based approach for pronunciation error detection, utilizing our custom Quran Phonetic Script (QPS) to encode Tajweed rules (unlike the IPA standard for Modern Standard Arabic). QPS uses a two-level script: (Phoneme level): Encodes Arabic letters with short/long vowels. (Sifa level): Encodes articulation characteristics of every phoneme. We further include comprehensive modeling with our novel multi-level CTC Model which achieved 0.16% average Phoneme Error Rate (PER) on the testset. We release all code, data, and models as open-source: https://obadx.github.io/prepare-quran-dataset/

We present a freely available speech corpus for the Uzbek language and report preliminary automatic speech recognition (ASR) results using both the deep neural network hidden Markov model (DNN-HMM) and end-to-end (E2E) architectures. The Uzbek speech corpus (USC) comprises 958 different speakers with a total of 105 hours of transcribed audio recordings. To the best of our knowledge, this is the first open-source Uzbek speech corpus dedicated to the ASR task. To ensure high quality, the USC has been manually checked by native speakers. We first describe the design and development procedures of the USC, and then explain the conducted ASR experiments in detail. The experimental results demonstrate promising results for the applicability of the USC for ASR. Specifically, 18.1% and 17.4% word error rates were achieved on the validation and test sets, respectively. To enable experiment reproducibility, we share the USC dataset, pre-trained models, and training recipes in our GitHub repository.

We introduce the first study of automatic detoxification of Russian texts to combat offensive language. Such a kind of textual style transfer can be used, for instance, for processing toxic content in social media. While much work has been done for the English language in this field, it has never been solved for the Russian language yet. We test two types of models - unsupervised approach based on BERT architecture that performs local corrections and supervised approach based on pretrained language GPT-2 model - and compare them with several baselines. In addition, we describe evaluation setup providing training datasets and metrics for automatic evaluation. The results show that the tested approaches can be successfully used for detoxification, although there is room for improvement.

We introduce Frankentexts, a new type of long-form narratives produced by LLMs under the extreme constraint that most tokens (e.g., 90%) must be copied verbatim from human writings. This task presents a challenging test of controllable generation, requiring models to satisfy a writing prompt, integrate disparate text fragments, and still produce a coherent narrative. To generate Frankentexts, we instruct the model to produce a draft by selecting and combining human-written passages, then iteratively revise the draft while maintaining a user-specified copy ratio. We evaluate the resulting Frankentexts along three axes: writing quality, instruction adherence, and detectability. Gemini-2.5-Pro performs surprisingly well on this task: 81% of its Frankentexts are coherent and 100% relevant to the prompt. Notably, up to 59% of these outputs are misclassified as human-written by detectors like Pangram, revealing limitations in AI text detectors. Human annotators can sometimes identify Frankentexts through their abrupt tone shifts and inconsistent grammar between segments, especially in longer generations. Beyond presenting a challenging generation task, Frankentexts invite discussion on building effective detectors for this new grey zone of authorship, provide training data for mixed authorship detection, and serve as a sandbox for studying human-AI co-writing processes.

Automatic lyrics transcription (ALT) remains a challenging task in the field of music information retrieval, despite great advances in automatic speech recognition (ASR) brought about by transformer-based architectures in recent years. One of the major challenges in ALT is the high amplitude of interfering audio signals relative to conventional ASR due to musical accompaniment. Recent advances in music source separation have enabled automatic extraction of high-quality separated vocals, which could potentially improve ALT performance. However, the effect of source separation has not been systematically investigated in order to establish best practices for its use. This work examines the impact of source separation on ALT using Whisper, a state-of-the-art open source ASR model. We evaluate Whisper's performance on original audio, separated vocals, and vocal stems across short-form and long-form transcription tasks. For short-form, we suggest a concatenation method that results in a consistent reduction in Word Error Rate (WER). For long-form, we propose an algorithm using source separation as a vocal activity detector to derive segment boundaries, which results in a consistent reduction in WER relative to Whisper's native long-form algorithm. Our approach achieves state-of-the-art results for an open source system on the Jam-ALT long-form ALT benchmark, without any training or fine-tuning. We also publish MUSDB-ALT, the first dataset of long-form lyric transcripts following the Jam-ALT guidelines for which vocal stems are publicly available.

Recent research has highlighted the potential of LLM applications, like ChatGPT, for performing label annotation on social computing text. However, it is already well known that performance hinges on the quality of the input prompts. To address this, there has been a flurry of research into prompt tuning -- techniques and guidelines that attempt to improve the quality of prompts. Yet these largely rely on manual effort and prior knowledge of the dataset being annotated. To address this limitation, we propose APT-Pipe, an automated prompt-tuning pipeline. APT-Pipe aims to automatically tune prompts to enhance ChatGPT's text classification performance on any given dataset. We implement APT-Pipe and test it across twelve distinct text classification datasets. We find that prompts tuned by APT-Pipe help ChatGPT achieve higher weighted F1-score on nine out of twelve experimented datasets, with an improvement of 7.01% on average. We further highlight APT-Pipe's flexibility as a framework by showing how it can be extended to support additional tuning mechanisms.

Tabular data, as a crucial form of data representation, exists in diverse formats on the Web. When confronted with complex and irregular tables, manual modification becomes a laborious task. This paper investigates the performance of Large Language Models (LLMs) in the context of table editing tasks. Existing research mainly focuses on regular-shaped tables, wherein instructions are used to generate code in SQL, Python, or Excel Office-script for manipulating the tables. Nevertheless, editing tables with irregular structures, particularly those containing merged cells spanning multiple rows, poses a challenge when using code. To address this, we introduce the WikiTableEdit dataset. Leveraging 26,531 tables from the WikiSQL dataset, we automatically generate natural language instructions for six distinct basic operations and the corresponding outcomes, resulting in over 200,000 instances. Subsequently, we evaluate several representative large language models on the WikiTableEdit dataset to demonstrate the challenge of this task. The dataset will be released to the community to promote related researches.

Purpose: Surgical workflow analysis is crucial for improving surgical efficiency and safety. However, previous studies rely heavily on large-scale annotated datasets, posing challenges in cost, scalability, and reliance on expert annotations. To address this, we propose Surg-FTDA (Few-shot Text-driven Adaptation), designed to handle various surgical workflow analysis tasks with minimal paired image-label data. Methods: Our approach has two key components. First, Few-shot selection-based modality alignment selects a small subset of images and aligns their embeddings with text embeddings from the downstream task, bridging the modality gap. Second, Text-driven adaptation leverages only text data to train a decoder, eliminating the need for paired image-text data. This decoder is then applied to aligned image embeddings, enabling image-related tasks without explicit image-text pairs. Results: We evaluate our approach to generative tasks (image captioning) and discriminative tasks (triplet recognition and phase recognition). Results show that Surg-FTDA outperforms baselines and generalizes well across downstream tasks. Conclusion: We propose a text-driven adaptation approach that mitigates the modality gap and handles multiple downstream tasks in surgical workflow analysis, with minimal reliance on large annotated datasets. The code and dataset will be released in https://github.com/CAMMA-public/Surg-FTDA

The rapid proliferation of large language models (LLMs) has increased the volume of machine-generated texts (MGTs) and blurred text authorship in various domains. However, most existing MGT benchmarks include single-author texts (human-written and machine-generated). This conventional design fails to capture more practical multi-author scenarios, where the user refines the LLM response for natural flow, coherence, and factual correctness. Our paper introduces the Benchmark of Expert-edited Machine-generated Outputs (Beemo), which includes 6.5k texts written by humans, generated by ten instruction-finetuned LLMs, and edited by experts for various use cases, ranging from creative writing to summarization. Beemo additionally comprises 13.1k machine-generated and LLM-edited texts, allowing for diverse MGT detection evaluation across various edit types. We document Beemo's creation protocol and present the results of benchmarking 33 configurations of MGT detectors in different experimental setups. We find that expert-based editing evades MGT detection, while LLM-edited texts are unlikely to be recognized as human-written. Beemo and all materials are publicly available.

This paper thoroughly analyses the effect of different input representations on polyphonic multi-instrument music transcription. We use our own GPU based spectrogram extraction tool, nnAudio, to investigate the influence of using a linear-frequency spectrogram, log-frequency spectrogram, Mel spectrogram, and constant-Q transform (CQT). Our results show that a 8.33% increase in transcription accuracy and a 9.39% reduction in error can be obtained by choosing the appropriate input representation (log-frequency spectrogram with STFT window length 4,096 and 2,048 frequency bins in the spectrogram) without changing the neural network design (single layer fully connected). Our experiments also show that Mel spectrogram is a compact representation for which we can reduce the number of frequency bins to only 512 while still keeping a relatively high music transcription accuracy.

Despite the considerable advancements in English LLMs, the progress in building comparable models for other languages has been hindered due to the scarcity of tailored resources. Our work aims to bridge this divide by introducing an expansive suite of resources specifically designed for the development of Indic LLMs, covering 22 languages, containing a total of 251B tokens and 74.8M instruction-response pairs. Recognizing the importance of both data quality and quantity, our approach combines highly curated manually verified data, unverified yet valuable data, and synthetic data. We build a clean, open-source pipeline for curating pre-training data from diverse sources, including websites, PDFs, and videos, incorporating best practices for crawling, cleaning, flagging, and deduplication. For instruction-fine tuning, we amalgamate existing Indic datasets, translate/transliterate English datasets into Indian languages, and utilize LLaMa2 and Mixtral models to create conversations grounded in articles from Indian Wikipedia and Wikihow. Additionally, we address toxicity alignment by generating toxic prompts for multiple scenarios and then generate non-toxic responses by feeding these toxic prompts to an aligned LLaMa2 model. We hope that the datasets, tools, and resources released as a part of this work will not only propel the research and development of Indic LLMs but also establish an open-source blueprint for extending such efforts to other languages. The data and other artifacts created as part of this work are released with permissive licenses.

The task of toxicity detection is still a relevant task, especially in the context of safe and fair LMs development. Nevertheless, labeled binary toxicity classification corpora are not available for all languages, which is understandable given the resource-intensive nature of the annotation process. Ukrainian, in particular, is among the languages lacking such resources. To our knowledge, there has been no existing toxicity classification corpus in Ukrainian. In this study, we aim to fill this gap by investigating cross-lingual knowledge transfer techniques and creating labeled corpora by: (i)~translating from an English corpus, (ii)~filtering toxic samples using keywords, and (iii)~annotating with crowdsourcing. We compare LLMs prompting and other cross-lingual transfer approaches with and without fine-tuning offering insights into the most robust and efficient baselines.

Clinical natural language processing requires methods that can address domain-specific challenges, such as complex medical terminology and clinical contexts. Recently, large language models (LLMs) have shown promise in this domain. Yet, their direct deployment can lead to privacy issues and are constrained by resources. To address this challenge, we delve into synthetic clinical text generation using LLMs for clinical NLP tasks. We propose an innovative, resource-efficient approach, ClinGen, which infuses knowledge into the process. Our model involves clinical knowledge extraction and context-informed LLM prompting. Both clinical topics and writing styles are drawn from external domain-specific knowledge graphs and LLMs to guide data generation. Our extensive empirical study across 7 clinical NLP tasks and 16 datasets reveals that ClinGen consistently enhances performance across various tasks, effectively aligning the distribution of real datasets and significantly enriching the diversity of generated training instances. We will publish our code and all the generated data in https://github.com/ritaranx/ClinGen.