{"action":"created","issue":{"url":"https://api.github.com/repos/mandricigor/ScaffMatch/issues/1","labels_url":"https://api.github.com/repos/mandricigor/ScaffMatch/issues/1/labels{/name}","comments_url":"https://api.github.com/repos/mandricigor/ScaffMatch/issues/1/comments","events_url":"https://api.github.com/repos/mandricigor/ScaffMatch/issues/1/events","html_url":"https://github.com/mandricigor/ScaffMatch/issues/1","id":129996502,"number":1,"title":"Increase the namber of scaffold?","user":{"login":"TakashiKoyama","id":11766897,"avatar_url":"https://avatars.githubusercontent.com/u/11766897?v=3","gravatar_id":"","url":"https://api.github.com/users/TakashiKoyama","html_url":"https://github.com/TakashiKoyama","followers_url":"https://api.github.com/users/TakashiKoyama/followers","following_url":"https://api.github.com/users/TakashiKoyama/following{/other_user}","gists_url":"https://api.github.com/users/TakashiKoyama/gists{/gist_id}","starred_url":"https://api.github.com/users/TakashiKoyama/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/TakashiKoyama/subscriptions","organizations_url":"https://api.github.com/users/TakashiKoyama/orgs","repos_url":"https://api.github.com/users/TakashiKoyama/repos","events_url":"https://api.github.com/users/TakashiKoyama/events{/privacy}","received_events_url":"https://api.github.com/users/TakashiKoyama/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":3,"created_at":"2016-01-30T15:12:26Z","updated_at":"2016-01-30T15:45:23Z","closed_at":null,"body":"Hi,\r\n\r\nFirst of all, I appreciate you to distribute such a nice tool.\r\nI have a question regarding result of ScaffMatch.\r\nI tried to scaffold my de novo assembled genome using BAC-end sequences from Sanger.\r\nThe original number of scaffold was 358,189 and after scaffolding with ScaffMatch, I got 364,297 scaffolds.\r\nI think the number of scaffold should decrease after scaffolding.\r\nCould you tell me why?\r\n\r\nThank you for your kind helps.\r\n\r\nbest,\r\nTakashi"},"comment":{"url":"https://api.github.com/repos/mandricigor/ScaffMatch/issues/comments/177214013","html_url":"https://github.com/mandricigor/ScaffMatch/issues/1#issuecomment-177214013","issue_url":"https://api.github.com/repos/mandricigor/ScaffMatch/issues/1","id":177214013,"user":{"login":"mandricigor","id":5565194,"avatar_url":"https://avatars.githubusercontent.com/u/5565194?v=3","gravatar_id":"","url":"https://api.github.com/users/mandricigor","html_url":"https://github.com/mandricigor","followers_url":"https://api.github.com/users/mandricigor/followers","following_url":"https://api.github.com/users/mandricigor/following{/other_user}","gists_url":"https://api.github.com/users/mandricigor/gists{/gist_id}","starred_url":"https://api.github.com/users/mandricigor/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/mandricigor/subscriptions","organizations_url":"https://api.github.com/users/mandricigor/orgs","repos_url":"https://api.github.com/users/mandricigor/repos","events_url":"https://api.github.com/users/mandricigor/events{/privacy}","received_events_url":"https://api.github.com/users/mandricigor/received_events","type":"User","site_admin":false},"created_at":"2016-01-30T15:45:23Z","updated_at":"2016-01-30T15:45:23Z","body":"Thank you for the information. 120kb insert length is kind of big one :) I\nhave never tried to run the tool on such insert lengths. Can you please\ntell me how many reads were aligned to the contigs?\n\nOr, in ideal case, if you can share your input with me, I could do a more\nthorough investigation. I would appreciate if you sent me your reads and\ncontigs.\n\nThanks.\n\n2016-01-30 17:41 GMT+02:00 TakashiKoyama <notifications@github.com>:\n\n> Thank you for your quick reply.\n> OK. I will try to provide some information regarding my situation.\n>\n>    1. Read length Since I got BESs by Sanger, the read length is apex.\n>    600 to 700bp.\n>    2. Insert length The average insert length of my BAC clones are apx.\n>    120kb. I don't know how deviate it is.\n>    3. Read orientation FR ( -> [ insert DNA apx. 120kb ] <- )\n>\n> Is these are the ones you asked? If you need more information, Please let\n> me know.\n>\n> best,\n> Takashi\n>\n> —\n> Reply to this email directly or view it on GitHub\n> <https://github.com/mandricigor/ScaffMatch/issues/1#issuecomment-177213217>\n> .\n>\n"}}