{"action":"created","issue":{"url":"https://api.github.com/repos/gt1/biobambam2/issues/4","labels_url":"https://api.github.com/repos/gt1/biobambam2/issues/4/labels{/name}","comments_url":"https://api.github.com/repos/gt1/biobambam2/issues/4/comments","events_url":"https://api.github.com/repos/gt1/biobambam2/issues/4/events","html_url":"https://github.com/gt1/biobambam2/pull/4","id":102382473,"number":4,"title":"Stopped adapter tags transferral to secondary and supplementary reads","user":{"login":"whitwham","id":9553034,"avatar_url":"https://avatars.githubusercontent.com/u/9553034?v=3","gravatar_id":"","url":"https://api.github.com/users/whitwham","html_url":"https://github.com/whitwham","followers_url":"https://api.github.com/users/whitwham/followers","following_url":"https://api.github.com/users/whitwham/following{/other_user}","gists_url":"https://api.github.com/users/whitwham/gists{/gist_id}","starred_url":"https://api.github.com/users/whitwham/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/whitwham/subscriptions","organizations_url":"https://api.github.com/users/whitwham/orgs","repos_url":"https://api.github.com/users/whitwham/repos","events_url":"https://api.github.com/users/whitwham/events{/privacy}","received_events_url":"https://api.github.com/users/whitwham/received_events","type":"User","site_admin":false},"labels":[],"state":"closed","locked":false,"assignee":null,"milestone":null,"comments":1,"created_at":"2015-08-21T13:46:08Z","updated_at":"2015-08-24T07:25:15Z","closed_at":"2015-08-24T07:25:08Z","pull_request":{"url":"https://api.github.com/repos/gt1/biobambam2/pulls/4","html_url":"https://github.com/gt1/biobambam2/pull/4","diff_url":"https://github.com/gt1/biobambam2/pull/4.diff","patch_url":"https://github.com/gt1/biobambam2/pull/4.patch"},"body":"Having adapter tags that were placed on the original full length reads transferred to the (usually) shorter secondary and supplementary can lead to later problems.  Subsequent adapter clipping can try and remove more of the remaining read than is left, while adapter reinserting can place adapter in incorrect positions, i.e. where reads have been hard clipped by the aligner."},"comment":{"url":"https://api.github.com/repos/gt1/biobambam2/issues/comments/134071223","html_url":"https://github.com/gt1/biobambam2/pull/4#issuecomment-134071223","issue_url":"https://api.github.com/repos/gt1/biobambam2/issues/4","id":134071223,"user":{"login":"gt1","id":3490790,"avatar_url":"https://avatars.githubusercontent.com/u/3490790?v=3","gravatar_id":"","url":"https://api.github.com/users/gt1","html_url":"https://github.com/gt1","followers_url":"https://api.github.com/users/gt1/followers","following_url":"https://api.github.com/users/gt1/following{/other_user}","gists_url":"https://api.github.com/users/gt1/gists{/gist_id}","starred_url":"https://api.github.com/users/gt1/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/gt1/subscriptions","organizations_url":"https://api.github.com/users/gt1/orgs","repos_url":"https://api.github.com/users/gt1/repos","events_url":"https://api.github.com/users/gt1/events{/privacy}","received_events_url":"https://api.github.com/users/gt1/received_events","type":"User","site_admin":false},"created_at":"2015-08-24T07:25:15Z","updated_at":"2015-08-24T07:25:15Z","body":"Thanks."}}