payload: {"action":"created","issue":{"url":"https://api.github.com/repos/ruanjue/wtdbg2/issues/148","repository_url":"https://api.github.com/repos/ruanjue/wtdbg2","labels_url":"https://api.github.com/repos/ruanjue/wtdbg2/issues/148/labels{/name}","comments_url":"https://api.github.com/repos/ruanjue/wtdbg2/issues/148/comments","events_url":"https://api.github.com/repos/ruanjue/wtdbg2/issues/148/events","html_url":"https://github.com/ruanjue/wtdbg2/issues/148","id":513055647,"node_id":"MDU6SXNzdWU1MTMwNTU2NDc=","number":148,"title":"Parameter suggestions for a repetitive, medium-sized plant genome","user":{"login":"davidecarlson","id":25590156,"node_id":"MDQ6VXNlcjI1NTkwMTU2","avatar_url":"https://avatars1.githubusercontent.com/u/25590156?v=4","gravatar_id":"","url":"https://api.github.com/users/davidecarlson","html_url":"https://github.com/davidecarlson","followers_url":"https://api.github.com/users/davidecarlson/followers","following_url":"https://api.github.com/users/davidecarlson/following{/other_user}","gists_url":"https://api.github.com/users/davidecarlson/gists{/gist_id}","starred_url":"https://api.github.com/users/davidecarlson/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/davidecarlson/subscriptions","organizations_url":"https://api.github.com/users/davidecarlson/orgs","repos_url":"https://api.github.com/users/davidecarlson/repos","events_url":"https://api.github.com/users/davidecarlson/events{/privacy}","received_events_url":"https://api.github.com/users/davidecarlson/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":0,"created_at":"2019-10-28T01:37:17Z","updated_at":"2019-10-28T06:42:59Z","closed_at":null,"author_association":"NONE","body":"Hi there,\r\nThanks for making this tool available.  It's amazingly fast!\r\n\r\nI'm currently trying to assemble a medium sized (~ 1.2 Gb) plant genome that has low heterozygosity, but is very repetitive.  I have ~ 96x coverage PacBio data -- a mix of older RSII and somewhat more recent Sequel reads (all sequenced between late 2014 to late 2016).\r\n\r\nI've currently run wtdbg2 twice, once with \"-x rs\" and once with \"-x sq\", and in both cases, between 800-900 Mb were assembled, with a very low N50 (roughly 40k each time).  \r\n\r\nI was just wondering if you have any suggestions for parameters I should tweak to hopefully get a larger and/or more contiguous assembly.\r\n\r\nThanks for any advice you can provide!\r\nBest,\r\nDave"},"comment":{"url":"https://api.github.com/repos/ruanjue/wtdbg2/issues/comments/546812652","html_url":"https://github.com/ruanjue/wtdbg2/issues/148#issuecomment-546812652","issue_url":"https://api.github.com/repos/ruanjue/wtdbg2/issues/148","id":546812652,"node_id":"MDEyOklzc3VlQ29tbWVudDU0NjgxMjY1Mg==","user":{"login":"ruanjue","id":16264260,"node_id":"MDQ6VXNlcjE2MjY0MjYw","avatar_url":"https://avatars1.githubusercontent.com/u/16264260?v=4","gravatar_id":"","url":"https://api.github.com/users/ruanjue","html_url":"https://github.com/ruanjue","followers_url":"https://api.github.com/users/ruanjue/followers","following_url":"https://api.github.com/users/ruanjue/following{/other_user}","gists_url":"https://api.github.com/users/ruanjue/gists{/gist_id}","starred_url":"https://api.github.com/users/ruanjue/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/ruanjue/subscriptions","organizations_url":"https://api.github.com/users/ruanjue/orgs","repos_url":"https://api.github.com/users/ruanjue/repos","events_url":"https://api.github.com/users/ruanjue/events{/privacy}","received_events_url":"https://api.github.com/users/ruanjue/received_events","type":"User","site_admin":false},"created_at":"2019-10-28T06:42:59Z","updated_at":"2019-10-28T06:42:59Z","author_association":"OWNER","body":"For the complicated plant genome, please try add `-R` option. It will take nearly double time to finish the contig assembly, but worth to try. "}}
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