{"action":"created","issue":{"url":"https://api.github.com/repos/ewels/MultiQC/issues/221","repository_url":"https://api.github.com/repos/ewels/MultiQC","labels_url":"https://api.github.com/repos/ewels/MultiQC/issues/221/labels{/name}","comments_url":"https://api.github.com/repos/ewels/MultiQC/issues/221/comments","events_url":"https://api.github.com/repos/ewels/MultiQC/issues/221/events","html_url":"https://github.com/ewels/MultiQC/issues/221","id":157082749,"number":221,"title":"Add support to hisat2","user":{"login":"pgonzale60","id":6851437,"avatar_url":"https://avatars.githubusercontent.com/u/6851437?v=3","gravatar_id":"","url":"https://api.github.com/users/pgonzale60","html_url":"https://github.com/pgonzale60","followers_url":"https://api.github.com/users/pgonzale60/followers","following_url":"https://api.github.com/users/pgonzale60/following{/other_user}","gists_url":"https://api.github.com/users/pgonzale60/gists{/gist_id}","starred_url":"https://api.github.com/users/pgonzale60/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/pgonzale60/subscriptions","organizations_url":"https://api.github.com/users/pgonzale60/orgs","repos_url":"https://api.github.com/users/pgonzale60/repos","events_url":"https://api.github.com/users/pgonzale60/events{/privacy}","received_events_url":"https://api.github.com/users/pgonzale60/received_events","type":"User","site_admin":false},"labels":[{"url":"https://api.github.com/repos/ewels/MultiQC/labels/module:%20new","name":"module: new","color":"bfe5bf"}],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":3,"created_at":"2016-05-26T21:25:06Z","updated_at":"2016-05-27T13:00:55Z","closed_at":null,"body":"Hi Phil,\r\n\r\n[According to JHU](https://ccb.jhu.edu/software/hisat2/index.shtml) \"HISAT2 is a successor to both HISAT and TopHat2\". It has the option of giving a report as [report.txt](https://github.com/ewels/MultiQC/files/285343/report.txt), but I think the most clearly useful information is what it outputs to stderr: \r\n\r\n[hisat2_PE.txt](https://github.com/ewels/MultiQC/files/285347/hisat2_PE.txt)\r\n[hisat2_SE.txt](https://github.com/ewels/MultiQC/files/285348/hisat2_SE.txt)\r\n\r\nI think the most important statistic is alignment rate, although alignment % classified by pairing also would be nice.\r\n\r\nBests,\r\n\r\nPablo"},"comment":{"url":"https://api.github.com/repos/ewels/MultiQC/issues/comments/222140096","html_url":"https://github.com/ewels/MultiQC/issues/221#issuecomment-222140096","issue_url":"https://api.github.com/repos/ewels/MultiQC/issues/221","id":222140096,"user":{"login":"pgonzale60","id":6851437,"avatar_url":"https://avatars.githubusercontent.com/u/6851437?v=3","gravatar_id":"","url":"https://api.github.com/users/pgonzale60","html_url":"https://github.com/pgonzale60","followers_url":"https://api.github.com/users/pgonzale60/followers","following_url":"https://api.github.com/users/pgonzale60/following{/other_user}","gists_url":"https://api.github.com/users/pgonzale60/gists{/gist_id}","starred_url":"https://api.github.com/users/pgonzale60/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/pgonzale60/subscriptions","organizations_url":"https://api.github.com/users/pgonzale60/orgs","repos_url":"https://api.github.com/users/pgonzale60/repos","events_url":"https://api.github.com/users/pgonzale60/events{/privacy}","received_events_url":"https://api.github.com/users/pgonzale60/received_events","type":"User","site_admin":false},"created_at":"2016-05-27T13:00:55Z","updated_at":"2016-05-27T13:00:55Z","body":"That's great! Seems like it will be possible in a near future.\r\n\r\nAlso, I checked the open and closed issues of bowtie and didn't find a reason to separate each sample summary in individual tracks. Wouldn't it be easier to inspect them if they were aggregated as in the featureCounts and STAR modules?"}}
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