{"action":"created","issue":{"url":"https://api.github.com/repos/pombase/pombase-chado/issues/594","repository_url":"https://api.github.com/repos/pombase/pombase-chado","labels_url":"https://api.github.com/repos/pombase/pombase-chado/issues/594/labels{/name}","comments_url":"https://api.github.com/repos/pombase/pombase-chado/issues/594/comments","events_url":"https://api.github.com/repos/pombase/pombase-chado/issues/594/events","html_url":"https://github.com/pombase/pombase-chado/issues/594","id":184221717,"number":594,"title":"new plan for filtering GO by evidence code.","user":{"login":"ValWood","id":7359272,"avatar_url":"https://avatars.githubusercontent.com/u/7359272?v=3","gravatar_id":"","url":"https://api.github.com/users/ValWood","html_url":"https://github.com/ValWood","followers_url":"https://api.github.com/users/ValWood/followers","following_url":"https://api.github.com/users/ValWood/following{/other_user}","gists_url":"https://api.github.com/users/ValWood/gists{/gist_id}","starred_url":"https://api.github.com/users/ValWood/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/ValWood/subscriptions","organizations_url":"https://api.github.com/users/ValWood/orgs","repos_url":"https://api.github.com/users/ValWood/repos","events_url":"https://api.github.com/users/ValWood/events{/privacy}","received_events_url":"https://api.github.com/users/ValWood/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":2,"created_at":"2016-10-20T12:55:00Z","updated_at":"2016-10-20T13:09:46Z","closed_at":null,"body":"Based on chat with Kim this morning.\r\n\r\nAt present  we include all EXP codes.\r\n\r\nThen, we import the GOA file which includes mainly IEA data, but the next version will also include PAINT  IBA/IBD, and  any manual annotation from UniProt or Intact.  I'd like to do a bit more checking (and probably filtering).\r\n\r\nAt present, we arbitrarily retain non-redundant annotations with IEA/NAS/TAS/IC evidence codes (I think).\r\nThis means that number of evidence codes of different types fluctuates arbitrarily between releases.\r\n\r\n\r\n\r\nInstead, we would like to configure so that there is a precedence for  evidence codes, with the ones that we are attempting to eradicate from use given a lower precedence.\r\n\r\nSo the order for retaining should be\r\n\r\nIC\r\nISO (I am putting ISO/ISS/ISM above IBA/IBD in the short term, this may change)\r\nISS \r\nISM\r\nIBA\r\nIBD\r\nTAS\r\nNAS\r\nIEA\r\n\r\nHowever, first I would like a data run using the order\r\n\r\nIC\r\nISO (I am putting ISO/ISS/ISM above IBA/IBD in the short term, this may change)\r\nISS \r\nISM\r\nTAS\r\nNAS\r\nIEA\r\nIBA\r\nIBD\r\n\r\nwhich will provide the smallest possible PAINT set for spot checking.\r\n\r\n\r\n\r\n\r\n\r\n\r\n"},"comment":{"url":"https://api.github.com/repos/pombase/pombase-chado/issues/comments/255100914","html_url":"https://github.com/pombase/pombase-chado/issues/594#issuecomment-255100914","issue_url":"https://api.github.com/repos/pombase/pombase-chado/issues/594","id":255100914,"user":{"login":"ValWood","id":7359272,"avatar_url":"https://avatars.githubusercontent.com/u/7359272?v=3","gravatar_id":"","url":"https://api.github.com/users/ValWood","html_url":"https://github.com/ValWood","followers_url":"https://api.github.com/users/ValWood/followers","following_url":"https://api.github.com/users/ValWood/following{/other_user}","gists_url":"https://api.github.com/users/ValWood/gists{/gist_id}","starred_url":"https://api.github.com/users/ValWood/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/ValWood/subscriptions","organizations_url":"https://api.github.com/users/ValWood/orgs","repos_url":"https://api.github.com/users/ValWood/repos","events_url":"https://api.github.com/users/ValWood/events{/privacy}","received_events_url":"https://api.github.com/users/ValWood/received_events","type":"User","site_admin":false},"created_at":"2016-10-20T13:09:46Z","updated_at":"2016-10-20T13:09:46Z","body":"The source of the PAINT annotation should eventually be\r\nhttp://viewvc.geneontology.org/viewvc/GO-SVN/trunk/gene-associations/submission/paint/pre-submission/\r\n\r\nThere are 8414 annotations in this file for 2340 gene products (good coverage now). I think a lot will be redundent annotaion for us though...\r\n\r\nAny negative (NOT) annotations should be filtered. These will not be useful to our community as they are negative annotations t we would not curate/expect.\r\nFor example cdc10 (a transcription factor) has NOT asparaginase\r\n\r\n\r\n"}}
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