{"action":"opened","issue":{"url":"https://api.github.com/repos/CharlesJB/metagene/issues/45","labels_url":"https://api.github.com/repos/CharlesJB/metagene/issues/45/labels{/name}","comments_url":"https://api.github.com/repos/CharlesJB/metagene/issues/45/comments","events_url":"https://api.github.com/repos/CharlesJB/metagene/issues/45/events","html_url":"https://github.com/CharlesJB/metagene/issues/45","id":97075482,"number":45,"title":"Update the available regions datasets","user":{"login":"CharlesJB","id":1325091,"avatar_url":"https://avatars.githubusercontent.com/u/1325091?v=3","gravatar_id":"","url":"https://api.github.com/users/CharlesJB","html_url":"https://github.com/CharlesJB","followers_url":"https://api.github.com/users/CharlesJB/followers","following_url":"https://api.github.com/users/CharlesJB/following{/other_user}","gists_url":"https://api.github.com/users/CharlesJB/gists{/gist_id}","starred_url":"https://api.github.com/users/CharlesJB/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/CharlesJB/subscriptions","organizations_url":"https://api.github.com/users/CharlesJB/orgs","repos_url":"https://api.github.com/users/CharlesJB/repos","events_url":"https://api.github.com/users/CharlesJB/events{/privacy}","received_events_url":"https://api.github.com/users/CharlesJB/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":{"login":"adeschen","id":7254636,"avatar_url":"https://avatars.githubusercontent.com/u/7254636?v=3","gravatar_id":"","url":"https://api.github.com/users/adeschen","html_url":"https://github.com/adeschen","followers_url":"https://api.github.com/users/adeschen/followers","following_url":"https://api.github.com/users/adeschen/following{/other_user}","gists_url":"https://api.github.com/users/adeschen/gists{/gist_id}","starred_url":"https://api.github.com/users/adeschen/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/adeschen/subscriptions","organizations_url":"https://api.github.com/users/adeschen/orgs","repos_url":"https://api.github.com/users/adeschen/repos","events_url":"https://api.github.com/users/adeschen/events{/privacy}","received_events_url":"https://api.github.com/users/adeschen/received_events","type":"User","site_admin":false},"milestone":{"url":"https://api.github.com/repos/CharlesJB/metagene/milestones/2","html_url":"https://github.com/CharlesJB/metagene/milestones/2.2","labels_url":"https://api.github.com/repos/CharlesJB/metagene/milestones/2/labels","id":1200623,"number":2,"title":"2.2","description":"","creator":{"login":"CharlesJB","id":1325091,"avatar_url":"https://avatars.githubusercontent.com/u/1325091?v=3","gravatar_id":"","url":"https://api.github.com/users/CharlesJB","html_url":"https://github.com/CharlesJB","followers_url":"https://api.github.com/users/CharlesJB/followers","following_url":"https://api.github.com/users/CharlesJB/following{/other_user}","gists_url":"https://api.github.com/users/CharlesJB/gists{/gist_id}","starred_url":"https://api.github.com/users/CharlesJB/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/CharlesJB/subscriptions","organizations_url":"https://api.github.com/users/CharlesJB/orgs","repos_url":"https://api.github.com/users/CharlesJB/repos","events_url":"https://api.github.com/users/CharlesJB/events{/privacy}","received_events_url":"https://api.github.com/users/CharlesJB/received_events","type":"User","site_admin":false},"open_issues":4,"closed_issues":0,"state":"open","created_at":"2015-07-09T12:47:18Z","updated_at":"2015-07-24T15:18:59Z","due_on":null,"closed_at":null},"comments":0,"created_at":"2015-07-24T15:18:59Z","updated_at":"2015-07-24T15:18:59Z","closed_at":null,"body":"Currently, we have `TSS.human` and `TSS.mouse` in [`inst/extdata`](https://github.com/CharlesJB/metagene/tree/master/inst/extdata).\r\n\r\nThey should be removed for the following reasons:\r\n* They were generated with the [`getGenesBiomart`](https://github.com/CharlesJB/metagene/blob/master/R/Utilities.R#L86) function.\r\n  * The regions obtained this way are not clearly associated with a genome version and thus are more complicate to replicate.\r\n  * The [`Txdb`](http://bioconductor.org/packages/release/BiocViews.html#___TxDb) brand of packages would be a better choice.\r\n* They were generate with an old version of `GenomicRanges` and should minimally be updated.\r\n\r\nAlso, the [`getGenes`](https://github.com/CharlesJB/metagene/blob/master/R/Utilities.R#L46) function should be updated to ask for more specific values (i.e.: mm9, mm10, hg18, hg19, etc... instead of mouse or human)."}}