{"payload":{"feedbackUrl":"https://github.com/orgs/community/discussions/53140","repo":{"id":334757885,"defaultBranch":"master","name":"biomsalign","ownerLogin":"ppillot","currentUserCanPush":false,"isFork":false,"isEmpty":false,"createdAt":"2021-01-31T21:12:05.000Z","ownerAvatar":"https://avatars.githubusercontent.com/u/3930632?v=4","public":true,"private":false,"isOrgOwned":false},"refInfo":{"name":"","listCacheKey":"v0:1704600545.0","currentOid":""},"activityList":{"items":[{"before":"157bb91087637d6f83bb3919977961b73993d167","after":"6561931b597a04e7a5358bfbbbe8afd97ecfc2b1","ref":"refs/heads/master","pushedAt":"2024-01-07T04:08:14.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"ppillot","name":"Paul Pillot","path":"/ppillot","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3930632?s=80&v=4"},"commit":{"message":"0.3.3","shortMessageHtmlLink":"0.3.3"}},{"before":"912637427748228d76b61aabac2dc557f58378e5","after":"157bb91087637d6f83bb3919977961b73993d167","ref":"refs/heads/master","pushedAt":"2024-01-07T04:04:26.000Z","pushType":"pr_merge","commitsCount":5,"pusher":{"login":"ppillot","name":"Paul Pillot","path":"/ppillot","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3930632?s=80&v=4"},"commit":{"message":"Merge pull request #8 from ppillot/gap-penalty-fixes\n\nGap-penalty-fixes","shortMessageHtmlLink":"Merge pull request <a class=\"issue-link js-issue-link\" data-error-text=\"Failed to load title\" data-id=\"2068955390\" data-permission-text=\"Title is private\" data-url=\"https://github.com/ppillot/biomsalign/issues/8\" data-hovercard-type=\"pull_request\" data-hovercard-url=\"/ppillot/biomsalign/pull/8/hovercard\" href=\"https://github.com/ppillot/biomsalign/pull/8\">#8</a> from ppillot/gap-penalty-fixes"}},{"before":null,"after":"654e2713456e58faf3748002afe33e1e92ebf082","ref":"refs/heads/gap-penalty-fixes","pushedAt":"2024-01-07T04:00:35.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"ppillot","name":"Paul Pillot","path":"/ppillot","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3930632?s=80&v=4"},"commit":{"message":"fix terminal gap half penalty\n\nIt should only apply to gap opening on the last column, not to gap closing.","shortMessageHtmlLink":"fix terminal gap half penalty"}},{"before":"d0b19ca484a548a122f751e092cb0bf646d089bd","after":"912637427748228d76b61aabac2dc557f58378e5","ref":"refs/heads/master","pushedAt":"2024-01-06T22:49:23.000Z","pushType":"force_push","commitsCount":0,"pusher":{"login":"ppillot","name":"Paul Pillot","path":"/ppillot","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3930632?s=80&v=4"},"commit":{"message":"0.3.2","shortMessageHtmlLink":"0.3.2"}},{"before":"60cc35f9a452ba20874b4f75ce69abceb5b0c92b","after":null,"ref":"refs/heads/weight-scheme-fixes","pushedAt":"2024-01-06T22:07:10.000Z","pushType":"branch_deletion","commitsCount":0,"pusher":{"login":"ppillot","name":"Paul Pillot","path":"/ppillot","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3930632?s=80&v=4"}},{"before":"a6071ffa59c81994947de8a2fdf9296f28952903","after":"d0b19ca484a548a122f751e092cb0bf646d089bd","ref":"refs/heads/master","pushedAt":"2024-01-06T22:07:05.000Z","pushType":"pr_merge","commitsCount":6,"pusher":{"login":"ppillot","name":"Paul Pillot","path":"/ppillot","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3930632?s=80&v=4"},"commit":{"message":"Merge pull request #7 from ppillot/weight-scheme-fixes\n\nWeight-scheme-fixes","shortMessageHtmlLink":"Merge pull request <a class=\"issue-link js-issue-link\" data-error-text=\"Failed to load title\" data-id=\"2068854460\" data-permission-text=\"Title is private\" data-url=\"https://github.com/ppillot/biomsalign/issues/7\" data-hovercard-type=\"pull_request\" data-hovercard-url=\"/ppillot/biomsalign/pull/7/hovercard\" href=\"https://github.com/ppillot/biomsalign/pull/7\">#7</a> from ppillot/weight-scheme-fixes"}},{"before":null,"after":"60cc35f9a452ba20874b4f75ce69abceb5b0c92b","ref":"refs/heads/weight-scheme-fixes","pushedAt":"2024-01-06T21:55:43.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"ppillot","name":"Paul Pillot","path":"/ppillot","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3930632?s=80&v=4"},"commit":{"message":"correct distance so that identical seq have sim=1\n\nAs we correct for random matches, they must be substracted from the denominator to have identical sequences getting a distance of 0.","shortMessageHtmlLink":"correct distance so that identical seq have sim=1"}},{"before":"f9259419624fcdd724c7df028d27968111bcde91","after":"a6071ffa59c81994947de8a2fdf9296f28952903","ref":"refs/heads/master","pushedAt":"2024-01-06T04:06:47.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"ppillot","name":"Paul Pillot","path":"/ppillot","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3930632?s=80&v=4"},"commit":{"message":"Create codeql.yml","shortMessageHtmlLink":"Create codeql.yml"}},{"before":"36fad6be561b55101f90008ea76579f7deae25af","after":"f9259419624fcdd724c7df028d27968111bcde91","ref":"refs/heads/master","pushedAt":"2024-01-06T03:22:28.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"ppillot","name":"Paul Pillot","path":"/ppillot","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3930632?s=80&v=4"},"commit":{"message":"0.3.1","shortMessageHtmlLink":"0.3.1"}},{"before":"b3d2b92193cb3b0080a9dff101548c44990b84e1","after":null,"ref":"refs/heads/kbit-distance","pushedAt":"2024-01-06T03:19:30.000Z","pushType":"branch_deletion","commitsCount":0,"pusher":{"login":"ppillot","name":"Paul Pillot","path":"/ppillot","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3930632?s=80&v=4"}},{"before":"571c18fd93952e39e1d385e5572bb3f19616e6b1","after":"36fad6be561b55101f90008ea76579f7deae25af","ref":"refs/heads/master","pushedAt":"2024-01-06T03:19:21.000Z","pushType":"pr_merge","commitsCount":3,"pusher":{"login":"ppillot","name":"Paul Pillot","path":"/ppillot","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3930632?s=80&v=4"},"commit":{"message":"Merge pull request #6 from ppillot/kbit-distance\n\nKbit distance with Single Matching distance","shortMessageHtmlLink":"Merge pull request <a class=\"issue-link js-issue-link\" data-error-text=\"Failed to load title\" data-id=\"2068333785\" data-permission-text=\"Title is private\" data-url=\"https://github.com/ppillot/biomsalign/issues/6\" data-hovercard-type=\"pull_request\" data-hovercard-url=\"/ppillot/biomsalign/pull/6/hovercard\" href=\"https://github.com/ppillot/biomsalign/pull/6\">#6</a> from ppillot/kbit-distance"}},{"before":null,"after":"b3d2b92193cb3b0080a9dff101548c44990b84e1","ref":"refs/heads/kbit-distance","pushedAt":"2024-01-06T03:14:50.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"ppillot","name":"Paul Pillot","path":"/ppillot","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3930632?s=80&v=4"},"commit":{"message":"use Simple Matching Distance for global similarity\n\nThe rationale is that when unrelated sequences are compared in a set of related sequences,\nif the sizes are different, longer sequences can have converging Kmers.\nThe SMD accounts for the absence of missing kmers, which counterbalances random matches.","shortMessageHtmlLink":"use Simple Matching Distance for global similarity"}},{"before":"548e7bc4f23a89d9f635b4ed5baa62d4a59bd0e9","after":"571c18fd93952e39e1d385e5572bb3f19616e6b1","ref":"refs/heads/master","pushedAt":"2024-01-01T20:59:41.000Z","pushType":"push","commitsCount":5,"pusher":{"login":"ppillot","name":"Paul Pillot","path":"/ppillot","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3930632?s=80&v=4"},"commit":{"message":"0.3.0","shortMessageHtmlLink":"0.3.0"}},{"before":"6840fcc80f7c44a25dc404eae8e44ffe242a7527","after":"548e7bc4f23a89d9f635b4ed5baa62d4a59bd0e9","ref":"refs/heads/master","pushedAt":"2024-01-01T19:32:44.000Z","pushType":"push","commitsCount":6,"pusher":{"login":"ppillot","name":"Paul Pillot","path":"/ppillot","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3930632?s=80&v=4"},"commit":{"message":"typos, comments, typings","shortMessageHtmlLink":"typos, comments, typings"}},{"before":null,"after":"548e7bc4f23a89d9f635b4ed5baa62d4a59bd0e9","ref":"refs/heads/diag-based-distances","pushedAt":"2023-12-31T17:18:10.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"ppillot","name":"Paul Pillot","path":"/ppillot","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/3930632?s=80&v=4"},"commit":{"message":"typos, comments, typings","shortMessageHtmlLink":"typos, comments, typings"}}],"hasNextPage":false,"hasPreviousPage":false,"activityType":"all","actor":null,"timePeriod":"all","sort":"DESC","perPage":30,"cursor":"djE6ks8AAAAD2XeJlQA","startCursor":null,"endCursor":null}},"title":"Activity · ppillot/biomsalign"}