Update README.md

README.md

@@ -42,27 +42,22 @@ configs:
   - split: train
     path: data/train-*
 ---
-
 # Dataset Description
 
-This dataset was used for evaluated the different models on the masking exercise, i.e. measuring how well the different models are able to recover the original character. 
+This dataset was used to evaluate different models on the masking exercise, measuring how well the different models can recover the original character.
 
 ## Dataset Overview
 
-The dataset is compiled from the RefSeq database and other sources, focusing on ESKAPE pathogens. The genomic features were sampled randomly, followed by contigous segmentation. 
-This dataset contains various different segment with lengths: [128, 256, 512, 1024]. 
-The segments were randomly selected and one of the characters were replace by * (masked_segment column). The reference_segment contains the original, non-replaced nucleotides.
-We performed 10000 masking per set, maximum of 2000 genomic feeatures. Only the genomic features: 'CDS', 'intergenic', 'pseudogene', 'ncRNA' features were considered. 
-
+The dataset is compiled from the RefSeq database and other sources, focusing on ESKAPE pathogens. The genomic features were sampled randomly, followed by contiguous segmentation. This dataset contains various segments with lengths: [128, 256, 512, 1024]. The segments were randomly selected, and one of the characters was replaced by '*' (masked_segment column) to create a masking task. The reference_segment contains the original, non-replaced nucleotides. We performed 10,000 maskings per set, with a maximum of 2,000 genomic features. Only the genomic features: 'CDS', 'intergenic', 'pseudogene', and 'ncRNA' were considered.
 
 ## Data Fields
 
 - `reference_segment_id`: A mapping of segment identifiers to their respective reference IDs in the database.
 - `masked_segment`: The DNA sequence of the segment with certain positions masked (marked with '*') for prediction or testing purposes.
 - `position_to_mask`: The specific position(s) in the sequence that have been masked, indicated by index numbers.
-- `masked_segment_id`: Unique identifiers assigned to the masked segments. (only unique with respect to length)
+- `masked_segment_id`: Unique identifiers assigned to the masked segments. (unique only with respect to length)
 - `contig_id`: Identifier of the contig to which the segment belongs.
-- `segment_id`: Unique identifier for each genomic segment. (reference segment id)
+- `segment_id`: Unique identifier for each genomic segment (same as reference segment id).
 - `strand`: The DNA strand of the segment, indicated as '+' (positive) or '-' (negative).
 - `seq_start`: Starting position of the segment within the contig.
 - `seq_end`: Ending position of the segment within the contig.
@@ -72,25 +67,22 @@ We performed 10000 masking per set, maximum of 2000 genomic feeatures. Only the
 - `segment_length`: The length of the genomic segment.
 - `original_segment`: The original genomic sequence without any masking.
 
-
 ## Usage
 
-This dataset is intended for academic and research purposes. Users are encouraged to apply this dataset in the development and evaluation of bioinformatics models, especially those related to genomic studies.
+This dataset is intended for academic and research purposes. Users are encouraged to use this dataset in the development and evaluation of bioinformatics models, especially those related to genomic studies.
 
 ## Citation
 
-
 If you use the code or data in this package, please cite:
 
 ```bibtex
 @Article{ProkBERT2024,
   author  = {Ligeti, Balázs and Szepesi-Nagy, István and Bodnár, Babett and Ligeti-Nagy, Noémi and Juhász, János},
   journal = {Frontiers in Microbiology},
-  title   = {{ProkBERT} family: genomic language models for microbiome applications},
+  title   = {{ProkBERT} family: Genomic language models for microbiome applications},
   year    = {2024},
   volume  = {14},
-  URL={https://www.frontiersin.org/articles/10.3389/fmicb.2023.1331233},       
-	DOI={10.3389/fmicb.2023.1331233},      
-	ISSN={1664-302X}
+  URL     = {https://www.frontiersin.org/articles/10.3389/fmicb.2023.1331233},
+  DOI     = {10.3389/fmicb.2023.1331233},
+  ISSN    = {1664-302X}
 }
-```