{"action":"created","issue":{"url":"https://api.github.com/repos/biocore/scikit-bio/issues/1114","labels_url":"https://api.github.com/repos/biocore/scikit-bio/issues/1114/labels{/name}","comments_url":"https://api.github.com/repos/biocore/scikit-bio/issues/1114/comments","events_url":"https://api.github.com/repos/biocore/scikit-bio/issues/1114/events","html_url":"https://github.com/biocore/scikit-bio/pull/1114","id":104977548,"number":1114,"title":"Ancom","user":{"login":"mortonjt","id":4184797,"avatar_url":"https://avatars.githubusercontent.com/u/4184797?v=3","gravatar_id":"","url":"https://api.github.com/users/mortonjt","html_url":"https://github.com/mortonjt","followers_url":"https://api.github.com/users/mortonjt/followers","following_url":"https://api.github.com/users/mortonjt/following{/other_user}","gists_url":"https://api.github.com/users/mortonjt/gists{/gist_id}","starred_url":"https://api.github.com/users/mortonjt/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/mortonjt/subscriptions","organizations_url":"https://api.github.com/users/mortonjt/orgs","repos_url":"https://api.github.com/users/mortonjt/repos","events_url":"https://api.github.com/users/mortonjt/events{/privacy}","received_events_url":"https://api.github.com/users/mortonjt/received_events","type":"User","site_admin":false},"labels":[{"url":"https://api.github.com/repos/biocore/scikit-bio/labels/API","name":"API","color":"c7def8"},{"url":"https://api.github.com/repos/biocore/scikit-bio/labels/enhancement","name":"enhancement","color":"006b75"},{"url":"https://api.github.com/repos/biocore/scikit-bio/labels/in%20progress","name":"in progress","color":"207de5"}],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":6,"created_at":"2015-09-04T22:01:31Z","updated_at":"2015-10-12T00:57:03Z","closed_at":null,"pull_request":{"url":"https://api.github.com/repos/biocore/scikit-bio/pulls/1114","html_url":"https://github.com/biocore/scikit-bio/pull/1114","diff_url":"https://github.com/biocore/scikit-bio/pull/1114.diff","patch_url":"https://github.com/biocore/scikit-bio/pull/1114.patch"},"body":"Here is the a PR for integrating ANCOM  this addresses #1054\r\n\r\nTo address @ebolyen 's concern, it is only a single function with a couple of helper functions.  If you guys think it is too beefy, let me know.\r\n\r\nAlso, there were some parameters in the most up to date version of ANCOM that didn't make complete sense to me.  @wdwvt1 , do you think you could address some of these parameters?  I highlighted them in the code.\r\n\r\nTodo:\r\n- [ ] squash commits"},"comment":{"url":"https://api.github.com/repos/biocore/scikit-bio/issues/comments/147267755","html_url":"https://github.com/biocore/scikit-bio/pull/1114#issuecomment-147267755","issue_url":"https://api.github.com/repos/biocore/scikit-bio/issues/1114","id":147267755,"user":{"login":"wdwvt1","id":1048569,"avatar_url":"https://avatars.githubusercontent.com/u/1048569?v=3","gravatar_id":"","url":"https://api.github.com/users/wdwvt1","html_url":"https://github.com/wdwvt1","followers_url":"https://api.github.com/users/wdwvt1/followers","following_url":"https://api.github.com/users/wdwvt1/following{/other_user}","gists_url":"https://api.github.com/users/wdwvt1/gists{/gist_id}","starred_url":"https://api.github.com/users/wdwvt1/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/wdwvt1/subscriptions","organizations_url":"https://api.github.com/users/wdwvt1/orgs","repos_url":"https://api.github.com/users/wdwvt1/repos","events_url":"https://api.github.com/users/wdwvt1/events{/privacy}","received_events_url":"https://api.github.com/users/wdwvt1/received_events","type":"User","site_admin":false},"created_at":"2015-10-12T00:57:03Z","updated_at":"2015-10-12T00:57:03Z","body":"@mortonjt - because of the addition of the diagonal fill the example in the documentation of the ancom function needs to be altered. I think you just have to subtract 1 from each entry in the W matrix. \r\n\r\n"}}