{"action":"created","issue":{"url":"https://api.github.com/repos/tseemann/prokka/issues/123","labels_url":"https://api.github.com/repos/tseemann/prokka/issues/123/labels{/name}","comments_url":"https://api.github.com/repos/tseemann/prokka/issues/123/comments","events_url":"https://api.github.com/repos/tseemann/prokka/issues/123/events","html_url":"https://github.com/tseemann/prokka/issues/123","id":90403551,"number":123,"title":"similarity-based prediction","user":{"login":"haruosuz","id":5062089,"avatar_url":"https://avatars.githubusercontent.com/u/5062089?v=3","gravatar_id":"","url":"https://api.github.com/users/haruosuz","html_url":"https://github.com/haruosuz","followers_url":"https://api.github.com/users/haruosuz/followers","following_url":"https://api.github.com/users/haruosuz/following{/other_user}","gists_url":"https://api.github.com/users/haruosuz/gists{/gist_id}","starred_url":"https://api.github.com/users/haruosuz/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/haruosuz/subscriptions","organizations_url":"https://api.github.com/users/haruosuz/orgs","repos_url":"https://api.github.com/users/haruosuz/repos","events_url":"https://api.github.com/users/haruosuz/events{/privacy}","received_events_url":"https://api.github.com/users/haruosuz/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":1,"created_at":"2015-06-23T14:25:44Z","updated_at":"2015-06-24T07:27:18Z","closed_at":null,"body":"Could I perform similarity-based prediction in Prokka? For small viral genomes, a similarity-based gene prediction may perform better than an ab initio gene finding. \r\n\r\nIn Prokka ChangeLog \"v1.5 - 9 Sep 2012 * removed --coverage option which wasn't being used/honoured\" (https://raw.githubusercontent.com/Victorian-Bioinformatics-Consortium/prokka/master/doc/ChangeLog.txt), does \"coverage\" indicate % query coverage (aligned sequence length coverage of a query sequence) in BLAST search?"},"comment":{"url":"https://api.github.com/repos/tseemann/prokka/issues/comments/114762221","html_url":"https://github.com/tseemann/prokka/issues/123#issuecomment-114762221","issue_url":"https://api.github.com/repos/tseemann/prokka/issues/123","id":114762221,"user":{"login":"tseemann","id":453972,"avatar_url":"https://avatars.githubusercontent.com/u/453972?v=3","gravatar_id":"","url":"https://api.github.com/users/tseemann","html_url":"https://github.com/tseemann","followers_url":"https://api.github.com/users/tseemann/followers","following_url":"https://api.github.com/users/tseemann/following{/other_user}","gists_url":"https://api.github.com/users/tseemann/gists{/gist_id}","starred_url":"https://api.github.com/users/tseemann/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/tseemann/subscriptions","organizations_url":"https://api.github.com/users/tseemann/orgs","repos_url":"https://api.github.com/users/tseemann/repos","events_url":"https://api.github.com/users/tseemann/events{/privacy}","received_events_url":"https://api.github.com/users/tseemann/received_events","type":"User","site_admin":false},"created_at":"2015-06-24T07:27:18Z","updated_at":"2015-06-24T07:27:18Z","body":"Question 1: No - sorry, Prokka wasn't designed to do protein:genome alignment based prediction.\r\n\r\nQuestion 2: Yes that was what was intended, and it may come back one day.\r\n"}}