{"action":"created","issue":{"url":"https://api.github.com/repos/cfe-lab/MiCall/issues/302","repository_url":"https://api.github.com/repos/cfe-lab/MiCall","labels_url":"https://api.github.com/repos/cfe-lab/MiCall/issues/302/labels{/name}","comments_url":"https://api.github.com/repos/cfe-lab/MiCall/issues/302/comments","events_url":"https://api.github.com/repos/cfe-lab/MiCall/issues/302/events","html_url":"https://github.com/cfe-lab/MiCall/issues/302","id":149909944,"number":302,"title":"Large gap in HCV coverage","user":{"login":"donkirkby","id":1639148,"avatar_url":"https://avatars.githubusercontent.com/u/1639148?v=3","gravatar_id":"","url":"https://api.github.com/users/donkirkby","html_url":"https://github.com/donkirkby","followers_url":"https://api.github.com/users/donkirkby/followers","following_url":"https://api.github.com/users/donkirkby/following{/other_user}","gists_url":"https://api.github.com/users/donkirkby/gists{/gist_id}","starred_url":"https://api.github.com/users/donkirkby/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/donkirkby/subscriptions","organizations_url":"https://api.github.com/users/donkirkby/orgs","repos_url":"https://api.github.com/users/donkirkby/repos","events_url":"https://api.github.com/users/donkirkby/events{/privacy}","received_events_url":"https://api.github.com/users/donkirkby/received_events","type":"User","site_admin":false},"labels":[{"url":"https://api.github.com/repos/cfe-lab/MiCall/labels/in%20progress","name":"in progress","color":"ededed"},{"url":"https://api.github.com/repos/cfe-lab/MiCall/labels/question","name":"question","color":"cc317c"}],"state":"open","locked":false,"assignee":{"login":"donkirkby","id":1639148,"avatar_url":"https://avatars.githubusercontent.com/u/1639148?v=3","gravatar_id":"","url":"https://api.github.com/users/donkirkby","html_url":"https://github.com/donkirkby","followers_url":"https://api.github.com/users/donkirkby/followers","following_url":"https://api.github.com/users/donkirkby/following{/other_user}","gists_url":"https://api.github.com/users/donkirkby/gists{/gist_id}","starred_url":"https://api.github.com/users/donkirkby/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/donkirkby/subscriptions","organizations_url":"https://api.github.com/users/donkirkby/orgs","repos_url":"https://api.github.com/users/donkirkby/repos","events_url":"https://api.github.com/users/donkirkby/events{/privacy}","received_events_url":"https://api.github.com/users/donkirkby/received_events","type":"User","site_admin":false},"assignees":[{"login":"donkirkby","id":1639148,"avatar_url":"https://avatars.githubusercontent.com/u/1639148?v=3","gravatar_id":"","url":"https://api.github.com/users/donkirkby","html_url":"https://github.com/donkirkby","followers_url":"https://api.github.com/users/donkirkby/followers","following_url":"https://api.github.com/users/donkirkby/following{/other_user}","gists_url":"https://api.github.com/users/donkirkby/gists{/gist_id}","starred_url":"https://api.github.com/users/donkirkby/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/donkirkby/subscriptions","organizations_url":"https://api.github.com/users/donkirkby/orgs","repos_url":"https://api.github.com/users/donkirkby/repos","events_url":"https://api.github.com/users/donkirkby/events{/privacy}","received_events_url":"https://api.github.com/users/donkirkby/received_events","type":"User","site_admin":false}],"milestone":{"url":"https://api.github.com/repos/cfe-lab/MiCall/milestones/17","html_url":"https://github.com/cfe-lab/MiCall/milestones/7.4%20-%20G2P%20improvements","labels_url":"https://api.github.com/repos/cfe-lab/MiCall/milestones/17/labels","id":1841760,"number":17,"title":"7.4 - G2P improvements","description":"","creator":{"login":"donkirkby","id":1639148,"avatar_url":"https://avatars.githubusercontent.com/u/1639148?v=3","gravatar_id":"","url":"https://api.github.com/users/donkirkby","html_url":"https://github.com/donkirkby","followers_url":"https://api.github.com/users/donkirkby/followers","following_url":"https://api.github.com/users/donkirkby/following{/other_user}","gists_url":"https://api.github.com/users/donkirkby/gists{/gist_id}","starred_url":"https://api.github.com/users/donkirkby/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/donkirkby/subscriptions","organizations_url":"https://api.github.com/users/donkirkby/orgs","repos_url":"https://api.github.com/users/donkirkby/repos","events_url":"https://api.github.com/users/donkirkby/events{/privacy}","received_events_url":"https://api.github.com/users/donkirkby/received_events","type":"User","site_admin":false},"open_issues":2,"closed_issues":11,"state":"open","created_at":"2016-06-21T22:39:20Z","updated_at":"2016-07-20T19:36:12Z","due_on":null,"closed_at":null},"comments":5,"created_at":"2016-04-20T23:02:47Z","updated_at":"2016-07-20T20:57:03Z","closed_at":null,"body":"On the 02 Feb 2016 run, both versions of the 62201A sample showed a large gap in coverage passing through E1, E2, p7, and NS2. Look at the `remap.csv` data to see if there's a consistent sequence getting soft clipped at the boundaries, then see if we could build a better consensus that would map the whole genome.\r\n\r\nAre there other HCV-1 subtypes that would get better coverage?"},"comment":{"url":"https://api.github.com/repos/cfe-lab/MiCall/issues/comments/234080556","html_url":"https://github.com/cfe-lab/MiCall/issues/302#issuecomment-234080556","issue_url":"https://api.github.com/repos/cfe-lab/MiCall/issues/302","id":234080556,"user":{"login":"donkirkby","id":1639148,"avatar_url":"https://avatars.githubusercontent.com/u/1639148?v=3","gravatar_id":"","url":"https://api.github.com/users/donkirkby","html_url":"https://github.com/donkirkby","followers_url":"https://api.github.com/users/donkirkby/followers","following_url":"https://api.github.com/users/donkirkby/following{/other_user}","gists_url":"https://api.github.com/users/donkirkby/gists{/gist_id}","starred_url":"https://api.github.com/users/donkirkby/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/donkirkby/subscriptions","organizations_url":"https://api.github.com/users/donkirkby/orgs","repos_url":"https://api.github.com/users/donkirkby/repos","events_url":"https://api.github.com/users/donkirkby/events{/privacy}","received_events_url":"https://api.github.com/users/donkirkby/received_events","type":"User","site_admin":false},"created_at":"2016-07-20T20:57:03Z","updated_at":"2016-07-20T20:57:03Z","body":"The D62201-HCV sample from 13 Mar 2015 had the problem described in issue #340, so I processed it on my local workstation and forced it to keep the reference for HCV-1a. When I did that, it reported 1a and 2b with the same gap showing in 1a."}}
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