{"action":"opened","issue":{"url":"https://api.github.com/repos/CSB5/lofreq/issues/6","labels_url":"https://api.github.com/repos/CSB5/lofreq/issues/6/labels{/name}","comments_url":"https://api.github.com/repos/CSB5/lofreq/issues/6/comments","events_url":"https://api.github.com/repos/CSB5/lofreq/issues/6/events","html_url":"https://github.com/CSB5/lofreq/issues/6","id":54547950,"number":6,"title":"region command flag","user":{"login":"zeneofa","id":5684085,"avatar_url":"https://avatars.githubusercontent.com/u/5684085?v=3","gravatar_id":"","url":"https://api.github.com/users/zeneofa","html_url":"https://github.com/zeneofa","followers_url":"https://api.github.com/users/zeneofa/followers","following_url":"https://api.github.com/users/zeneofa/following{/other_user}","gists_url":"https://api.github.com/users/zeneofa/gists{/gist_id}","starred_url":"https://api.github.com/users/zeneofa/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/zeneofa/subscriptions","organizations_url":"https://api.github.com/users/zeneofa/orgs","repos_url":"https://api.github.com/users/zeneofa/repos","events_url":"https://api.github.com/users/zeneofa/events{/privacy}","received_events_url":"https://api.github.com/users/zeneofa/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":0,"created_at":"2015-01-16T07:38:36Z","updated_at":"2015-01-16T07:38:36Z","closed_at":null,"body":"Hi,\r\n\r\nThe command help statements for lofreq call mentions:\r\n\r\n- Regions\r\n       -r | --region STR            Region in which pileup should be generated [null]\r\n       -l | --bed FILE              List of positions (chr pos) or regions (BED) [null]\r\n\r\nHow do we pass a single tuple of say, chr pos-start pos-end, to lofreq call? Does this have to be in bed format, or can this be done from the command line (without needing a file)? \r\n"}}