{"action":"closed","issue":{"url":"https://api.github.com/repos/CharlesJB/ENCODExplorer/issues/9","repository_url":"https://api.github.com/repos/CharlesJB/ENCODExplorer","labels_url":"https://api.github.com/repos/CharlesJB/ENCODExplorer/issues/9/labels{/name}","comments_url":"https://api.github.com/repos/CharlesJB/ENCODExplorer/issues/9/comments","events_url":"https://api.github.com/repos/CharlesJB/ENCODExplorer/issues/9/events","html_url":"https://github.com/CharlesJB/ENCODExplorer/issues/9","id":141278359,"number":9,"title":"Update documentation with correct file formats","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":[{"url":"https://api.github.com/repos/CharlesJB/ENCODExplorer/labels/invalid","name":"invalid","color":"e6e6e6"}],"state":"closed","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":0,"created_at":"2016-03-16T13:40:15Z","updated_at":"2016-07-07T18:50:25Z","closed_at":"2016-07-07T18:50:25Z","body":"There are some problem with the documentation where some files are not found. This is caused by the fact that the peaks file format were updated in the Encode project database. If we look into the current `encode_df` object:\r\n\r\n```r\r\n> table(encode_df$experiment$file_format)\r\n\r\n    bam     bed  bigBed  bigWig     CEL csfasta  csqual   fasta   fastq     gtf\r\n   7058    5092    4915    9639       8      37      38       3   12977    1152\r\n   idat     tar     tsv\r\n    126     111     465\r\n```\r\n\r\nWe can see that the only format that fit for peaks is bed."}}
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