{"action":"created","issue":{"url":"https://api.github.com/repos/WormBase/website/issues/4835","repository_url":"https://api.github.com/repos/WormBase/website","labels_url":"https://api.github.com/repos/WormBase/website/issues/4835/labels{/name}","comments_url":"https://api.github.com/repos/WormBase/website/issues/4835/comments","events_url":"https://api.github.com/repos/WormBase/website/issues/4835/events","html_url":"https://github.com/WormBase/website/issues/4835","id":155989485,"number":4835,"title":"liftOver of modENCODE tracks","user":{"login":"khowe","id":708483,"avatar_url":"https://avatars.githubusercontent.com/u/708483?v=3","gravatar_id":"","url":"https://api.github.com/users/khowe","html_url":"https://github.com/khowe","followers_url":"https://api.github.com/users/khowe/followers","following_url":"https://api.github.com/users/khowe/following{/other_user}","gists_url":"https://api.github.com/users/khowe/gists{/gist_id}","starred_url":"https://api.github.com/users/khowe/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/khowe/subscriptions","organizations_url":"https://api.github.com/users/khowe/orgs","repos_url":"https://api.github.com/users/khowe/repos","events_url":"https://api.github.com/users/khowe/events{/privacy}","received_events_url":"https://api.github.com/users/khowe/received_events","type":"User","site_admin":false},"labels":[{"url":"https://api.github.com/repos/WormBase/website/labels/Hinxton","name":"Hinxton","color":"FF7711"},{"url":"https://api.github.com/repos/WormBase/website/labels/Webteam","name":"Webteam","color":"a369e7"}],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":20,"created_at":"2016-05-20T15:29:13Z","updated_at":"2016-06-16T15:02:12Z","closed_at":null,"body":"As discussed on the conference call, we need to liftOver the modENCODE genome browser tracks to the current C. elegans assembly. \r\n\r\nThis could be quite a mammoth task, so we might want to restrict attention to the tracks where precise position information is important (e.g. SL sites, miRNAs), and de-prioritise those tracks where the approx location of the feature may be good enough (e.g. ChIP-Seq peaks). \r\n\r\nHinxton are happy to do this. We have the software, and a compute cluster. but we do not have the data. @scottcain , can we get the data to Hinxton some how? I know you said that you don't have the original GFF files for some of the tracks, but that's okay. You can give us a MySQL dump of the Bio::SeqFeature::Store database, and we can give you converted dump in return. We would need the external sources in addition (BAMs etc).  "},"comment":{"url":"https://api.github.com/repos/WormBase/website/issues/comments/226512506","html_url":"https://github.com/WormBase/website/issues/4835#issuecomment-226512506","issue_url":"https://api.github.com/repos/WormBase/website/issues/4835","id":226512506,"user":{"login":"khowe","id":708483,"avatar_url":"https://avatars.githubusercontent.com/u/708483?v=3","gravatar_id":"","url":"https://api.github.com/users/khowe","html_url":"https://github.com/khowe","followers_url":"https://api.github.com/users/khowe/followers","following_url":"https://api.github.com/users/khowe/following{/other_user}","gists_url":"https://api.github.com/users/khowe/gists{/gist_id}","starred_url":"https://api.github.com/users/khowe/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/khowe/subscriptions","organizations_url":"https://api.github.com/users/khowe/orgs","repos_url":"https://api.github.com/users/khowe/repos","events_url":"https://api.github.com/users/khowe/events{/privacy}","received_events_url":"https://api.github.com/users/khowe/received_events","type":"User","site_admin":false},"created_at":"2016-06-16T15:02:12Z","updated_at":"2016-06-16T15:02:12Z","body":"@scottcain we fired up an instance here, and pulled down some of the data (specifically the Gbrowse Mysql databases). However, I had underestimated just how many tracks there are!\r\n\r\nI've put this on hold for the next few weeks. When I revisit it, I'll think about how we might prioritise a subset of the tracks for liftOver. "}}
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