{"action":"created","issue":{"url":"https://api.github.com/repos/miRTop/incubator/issues/13","repository_url":"https://api.github.com/repos/miRTop/incubator","labels_url":"https://api.github.com/repos/miRTop/incubator/issues/13/labels{/name}","comments_url":"https://api.github.com/repos/miRTop/incubator/issues/13/comments","events_url":"https://api.github.com/repos/miRTop/incubator/issues/13/events","html_url":"https://github.com/miRTop/incubator/issues/13","id":235592391,"node_id":"MDU6SXNzdWUyMzU1OTIzOTE=","number":13,"title":"GFF3::source | GFF3::type","user":{"login":"lpantano","id":1621788,"node_id":"MDQ6VXNlcjE2MjE3ODg=","avatar_url":"https://avatars2.githubusercontent.com/u/1621788?v=4","gravatar_id":"","url":"https://api.github.com/users/lpantano","html_url":"https://github.com/lpantano","followers_url":"https://api.github.com/users/lpantano/followers","following_url":"https://api.github.com/users/lpantano/following{/other_user}","gists_url":"https://api.github.com/users/lpantano/gists{/gist_id}","starred_url":"https://api.github.com/users/lpantano/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/lpantano/subscriptions","organizations_url":"https://api.github.com/users/lpantano/orgs","repos_url":"https://api.github.com/users/lpantano/repos","events_url":"https://api.github.com/users/lpantano/events{/privacy}","received_events_url":"https://api.github.com/users/lpantano/received_events","type":"User","site_admin":false},"labels":[{"id":616164549,"node_id":"MDU6TGFiZWw2MTYxNjQ1NDk=","url":"https://api.github.com/repos/miRTop/incubator/labels/consensus","name":"consensus","color":"5319e7","default":false},{"id":280226240,"node_id":"MDU6TGFiZWwyODAyMjYyNDA=","url":"https://api.github.com/repos/miRTop/incubator/labels/discussion","name":"discussion","color":"159818","default":false}],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":21,"created_at":"2017-06-13T15:21:35Z","updated_at":"2018-07-16T16:53:58Z","closed_at":null,"author_association":"CONTRIBUTOR","body":"Hi all again!\r\n\r\ncc: @lpantano @gurgese @ThomasDesvignes @mhalushka @mlhack @keilbeck @BastianFromm @ivlachos @TJU-CMC\r\n\r\nI propose to use the database used by the tool to put in the second column:  **source**\r\n\r\nI propose to use these labels for the **type** column (3rd):\r\n\r\n* hairpin : this could be the parent\r\n* annotated: this could be the annotated in the database, this _is child from hairpin_. I am trying to avoid **canonical** as we have discussed before. Maybe **reference** is another idea since it would be similar to the problem we have for SNPs, where reference it was just designated by the first genomes sequenced but doesn't mean is the most abundant. **miRNA** is another we can use I guess.\r\n* isomiR/variant: this could be the detected sequence, this is _child from previous one_\r\n* other types of miRNAs?\r\n\r\nContribute with more options or any thoughts you have about it! thanks!"},"comment":{"url":"https://api.github.com/repos/miRTop/incubator/issues/comments/405313457","html_url":"https://github.com/miRTop/incubator/issues/13#issuecomment-405313457","issue_url":"https://api.github.com/repos/miRTop/incubator/issues/13","id":405313457,"node_id":"MDEyOklzc3VlQ29tbWVudDQwNTMxMzQ1Nw==","user":{"login":"lpantano","id":1621788,"node_id":"MDQ6VXNlcjE2MjE3ODg=","avatar_url":"https://avatars2.githubusercontent.com/u/1621788?v=4","gravatar_id":"","url":"https://api.github.com/users/lpantano","html_url":"https://github.com/lpantano","followers_url":"https://api.github.com/users/lpantano/followers","following_url":"https://api.github.com/users/lpantano/following{/other_user}","gists_url":"https://api.github.com/users/lpantano/gists{/gist_id}","starred_url":"https://api.github.com/users/lpantano/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/lpantano/subscriptions","organizations_url":"https://api.github.com/users/lpantano/orgs","repos_url":"https://api.github.com/users/lpantano/repos","events_url":"https://api.github.com/users/lpantano/events{/privacy}","received_events_url":"https://api.github.com/users/lpantano/received_events","type":"User","site_admin":false},"created_at":"2018-07-16T16:53:58Z","updated_at":"2018-07-16T16:53:58Z","author_association":"CONTRIBUTOR","body":"Hi @phillipeloher,\r\n\r\nthanks for the comment. \r\n\r\nWe don't consider isomiR to be a child of miRNA_Ref but a child of precursor. \r\n\r\nIt is true that the Variant attribute is relative to the miRNA_Ref, but I think this is the same problem than any other database where you get a reference somehow. I think having the universal ID can get the data mapped to any other database, and if we allow cross-mapping tool in the API: mirBase to mirGeneDB etc, then we solve this problem somehow, what do you think? I'll open an issue with this request.\r\n\r\nIt is true we can remove miRNA_ref from there and use the variants to be NA meaning that using that database there is no variants. I'll open a discussion for this specific issue. Thanks! great idea!\r\n\r\n\r\n"}}
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