{"action":"closed","issue":{"url":"https://api.github.com/repos/drivenbyentropy/aptasuite/issues/54","repository_url":"https://api.github.com/repos/drivenbyentropy/aptasuite","labels_url":"https://api.github.com/repos/drivenbyentropy/aptasuite/issues/54/labels{/name}","comments_url":"https://api.github.com/repos/drivenbyentropy/aptasuite/issues/54/comments","events_url":"https://api.github.com/repos/drivenbyentropy/aptasuite/issues/54/events","html_url":"https://github.com/drivenbyentropy/aptasuite/issues/54","id":348245418,"node_id":"MDU6SXNzdWUzNDgyNDU0MTg=","number":54,"title":"Reverse-complemented sequences in raw data","user":{"login":"PJpb","id":32843053,"node_id":"MDQ6VXNlcjMyODQzMDUz","avatar_url":"https://avatars1.githubusercontent.com/u/32843053?v=4","gravatar_id":"","url":"https://api.github.com/users/PJpb","html_url":"https://github.com/PJpb","followers_url":"https://api.github.com/users/PJpb/followers","following_url":"https://api.github.com/users/PJpb/following{/other_user}","gists_url":"https://api.github.com/users/PJpb/gists{/gist_id}","starred_url":"https://api.github.com/users/PJpb/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/PJpb/subscriptions","organizations_url":"https://api.github.com/users/PJpb/orgs","repos_url":"https://api.github.com/users/PJpb/repos","events_url":"https://api.github.com/users/PJpb/events{/privacy}","received_events_url":"https://api.github.com/users/PJpb/received_events","type":"User","site_admin":false},"labels":[],"state":"closed","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":9,"created_at":"2018-08-07T09:43:24Z","updated_at":"2018-09-12T21:11:42Z","closed_at":"2018-09-12T21:11:42Z","author_association":"NONE","body":"As promised - here we go... ;)\r\n\r\nHi,\r\nI found out that in my dataset (paired-end fastq from Illumina), around half of the sequences is reverse complemented in regards of the actual selection library direction (which is not unexpected), i.e. they are in correct direction in the second \"reverse\" file. It seems that AptaSuite is not taking that into acount, i.e. during parsing it discards the rev-comp sequences as not matching the 3' primer. I've tried to input both the actual 3' primer and the rev-comp of the 3' primer, neither works.\r\nAnything I can do to make it work, apart from reverse-complementing (using other tools) the sequences which are not forward-oriented?\r\n\r\nBest regards,\r\nPJ"}}
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