{"action":"created","issue":{"url":"https://api.github.com/repos/ga4gh/schemas/issues/216","labels_url":"https://api.github.com/repos/ga4gh/schemas/issues/216/labels{/name}","comments_url":"https://api.github.com/repos/ga4gh/schemas/issues/216/comments","events_url":"https://api.github.com/repos/ga4gh/schemas/issues/216/events","html_url":"https://github.com/ga4gh/schemas/issues/216","id":52388567,"number":216,"title":"Variant annotation in VCF near-term concordance","user":{"login":"stevenbrenner","id":10227295,"avatar_url":"https://avatars.githubusercontent.com/u/10227295?v=3","gravatar_id":"","url":"https://api.github.com/users/stevenbrenner","html_url":"https://github.com/stevenbrenner","followers_url":"https://api.github.com/users/stevenbrenner/followers","following_url":"https://api.github.com/users/stevenbrenner/following{/other_user}","gists_url":"https://api.github.com/users/stevenbrenner/gists{/gist_id}","starred_url":"https://api.github.com/users/stevenbrenner/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/stevenbrenner/subscriptions","organizations_url":"https://api.github.com/users/stevenbrenner/orgs","repos_url":"https://api.github.com/users/stevenbrenner/repos","events_url":"https://api.github.com/users/stevenbrenner/events{/privacy}","received_events_url":"https://api.github.com/users/stevenbrenner/received_events","type":"User","site_admin":false},"labels":[{"url":"https://api.github.com/repos/ga4gh/schemas/labels/Variant%20Annotation","name":"Variant Annotation","color":"bfe5bf"}],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":3,"created_at":"2014-12-18T16:53:37Z","updated_at":"2015-04-20T01:30:31Z","closed_at":null,"body":"The GA4GH Variant Annotation task teamis focused on providing a schema for reporting annotations on variants consistent with the broader GA4GH APIs.  This project will involve a conceptual study first.  See: https://github.com/ga4gh/schemas/issues/214\r\n\r\n\r\nAs an immediate near-term task, the GA4GH annotation task team will adopt and provide feedback on existing extensive efforts by Pablo Cingolani, Fiona Cunningham, Will McLaren & Kai Wang to harmonize the current variant annotations in VCF format.  See:\r\nhttps://docs.google.com/document/d/1kjr7vpMjGp0DT3MbInsNIZOnopna3uN93ufSEF0wRuM/edit?pli=1\r\n\r\nThis thread is to capture discussion about this format."},"comment":{"url":"https://api.github.com/repos/ga4gh/schemas/issues/comments/94332915","html_url":"https://github.com/ga4gh/schemas/issues/216#issuecomment-94332915","issue_url":"https://api.github.com/repos/ga4gh/schemas/issues/216","id":94332915,"user":{"login":"davecap","id":7460,"avatar_url":"https://avatars.githubusercontent.com/u/7460?v=3","gravatar_id":"","url":"https://api.github.com/users/davecap","html_url":"https://github.com/davecap","followers_url":"https://api.github.com/users/davecap/followers","following_url":"https://api.github.com/users/davecap/following{/other_user}","gists_url":"https://api.github.com/users/davecap/gists{/gist_id}","starred_url":"https://api.github.com/users/davecap/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/davecap/subscriptions","organizations_url":"https://api.github.com/users/davecap/orgs","repos_url":"https://api.github.com/users/davecap/repos","events_url":"https://api.github.com/users/davecap/events{/privacy}","received_events_url":"https://api.github.com/users/davecap/received_events","type":"User","site_admin":false},"created_at":"2015-04-20T01:30:31Z","updated_at":"2015-04-20T01:30:31Z","body":"This thread seems to be somewhat inactive, but has anyone thought about base64url encoding a JSON blob into the VCF INFO field? This would allow embedding annotations in a standardized GA4GH schema into VCFs, and would substitute the error-prone parsing of long and complex INFO fields with a simple, two-step de-serialization process supported by all languages.\r\n\r\nOf course, it removes the possibility of an INFO field being humanly readable... but do people parse them by eye?\r\n"}}