{"action":"created","issue":{"url":"https://api.github.com/repos/OpenMS/OpenMS/issues/1395","labels_url":"https://api.github.com/repos/OpenMS/OpenMS/issues/1395/labels{/name}","comments_url":"https://api.github.com/repos/OpenMS/OpenMS/issues/1395/comments","events_url":"https://api.github.com/repos/OpenMS/OpenMS/issues/1395/events","html_url":"https://github.com/OpenMS/OpenMS/issues/1395","id":73574702,"number":1395,"title":"optimal TOPP tool parameters for data from various MS machines","user":{"login":"lars20070","id":6149805,"avatar_url":"https://avatars.githubusercontent.com/u/6149805?v=3","gravatar_id":"","url":"https://api.github.com/users/lars20070","html_url":"https://github.com/lars20070","followers_url":"https://api.github.com/users/lars20070/followers","following_url":"https://api.github.com/users/lars20070/following{/other_user}","gists_url":"https://api.github.com/users/lars20070/gists{/gist_id}","starred_url":"https://api.github.com/users/lars20070/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/lars20070/subscriptions","organizations_url":"https://api.github.com/users/lars20070/orgs","repos_url":"https://api.github.com/users/lars20070/repos","events_url":"https://api.github.com/users/lars20070/events{/privacy}","received_events_url":"https://api.github.com/users/lars20070/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":2,"created_at":"2015-05-06T09:47:21Z","updated_at":"2015-06-19T10:23:39Z","closed_at":null,"body":"This thread serves as discussion forum for optimal parameter settings for search engine and quantification TOPP tools. Experimental data from different machines (Q Exactive, Q Star ...) will require different settings.\r\n\r\nIf you can provide good parameters, please upload *.ini for individual tools or *.toppas for complete workflows to Gist [1] and link to this thread. If you are underwhelmed by your results, please post your problems.\r\n\r\n[1] Gist https://gist.github.com"},"comment":{"url":"https://api.github.com/repos/OpenMS/OpenMS/issues/comments/113461745","html_url":"https://github.com/OpenMS/OpenMS/issues/1395#issuecomment-113461745","issue_url":"https://api.github.com/repos/OpenMS/OpenMS/issues/1395","id":113461745,"user":{"login":"lars20070","id":6149805,"avatar_url":"https://avatars.githubusercontent.com/u/6149805?v=3","gravatar_id":"","url":"https://api.github.com/users/lars20070","html_url":"https://github.com/lars20070","followers_url":"https://api.github.com/users/lars20070/followers","following_url":"https://api.github.com/users/lars20070/following{/other_user}","gists_url":"https://api.github.com/users/lars20070/gists{/gist_id}","starred_url":"https://api.github.com/users/lars20070/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/lars20070/subscriptions","organizations_url":"https://api.github.com/users/lars20070/orgs","repos_url":"https://api.github.com/users/lars20070/repos","events_url":"https://api.github.com/users/lars20070/events{/privacy}","received_events_url":"https://api.github.com/users/lars20070/received_events","type":"User","site_admin":false},"created_at":"2015-06-19T10:23:39Z","updated_at":"2015-06-19T10:23:39Z","body":"For the detection of **peptide pairs or triplets** in Q Exactive data we recommend the following settings [1].\r\n\r\ncharge: 1-5\r\nRT typical: 50 secs\r\nRT minimum: 5 secs\r\nm/z tolerance: 10 ppm\r\nintensity_cutoff: 1\r\npeptide_similarity: 0.4\r\naveragine_similarity: 0.3\r\nmissed cleavages: 3\r\n\r\n[1] https://gist.github.com/lars20070/5e6103cdacaab4163361"}}