{"payload":{"feedbackUrl":"https://github.com/orgs/community/discussions/53140","repo":{"id":618044906,"defaultBranch":"main","name":"tstrait","ownerLogin":"tskit-dev","currentUserCanPush":false,"isFork":false,"isEmpty":false,"createdAt":"2023-03-23T16:30:26.000Z","ownerAvatar":"https://avatars.githubusercontent.com/u/36278110?v=4","public":true,"private":false,"isOrgOwned":true},"refInfo":{"name":"","listCacheKey":"v0:1725409262.0","currentOid":""},"activityList":{"items":[{"before":"53fc5386b3ba54d8ea722bb66893333116d89f45","after":"84440388c487234d56392b033008ef18810ad77b","ref":"refs/heads/main","pushedAt":"2024-09-04T09:41:58.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"mergify[bot]","name":null,"path":"/apps/mergify","primaryAvatarUrl":"https://avatars.githubusercontent.com/in/10562?s=80&v=4"},"commit":{"message":"Fix Actions versions","shortMessageHtmlLink":"Fix Actions versions"}},{"before":"91ba95e7be5fd8fc1f01d1ed2b72694befe0ff50","after":null,"ref":"refs/heads/dependabot/github_actions/dot-github/workflows/actions/download-artifact-4.1.7","pushedAt":"2024-09-04T00:21:02.000Z","pushType":"branch_deletion","commitsCount":0,"pusher":{"login":"benjeffery","name":"Ben Jeffery","path":"/benjeffery","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8552?s=80&v=4"}},{"before":"2f52d95cf28f72c8ae416f5d7df26b488dcda6a4","after":"53fc5386b3ba54d8ea722bb66893333116d89f45","ref":"refs/heads/main","pushedAt":"2024-09-04T00:20:59.000Z","pushType":"pr_merge","commitsCount":2,"pusher":{"login":"benjeffery","name":"Ben Jeffery","path":"/benjeffery","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/8552?s=80&v=4"},"commit":{"message":"Merge pull request #152 from tskit-dev/dependabot/github_actions/dot-github/workflows/actions/download-artifact-4.1.7\n\nBump actions/download-artifact from 3 to 4.1.7 in /.github/workflows","shortMessageHtmlLink":"Merge pull request #152 from tskit-dev/dependabot/github_actions/dot-…"}},{"before":null,"after":"91ba95e7be5fd8fc1f01d1ed2b72694befe0ff50","ref":"refs/heads/dependabot/github_actions/dot-github/workflows/actions/download-artifact-4.1.7","pushedAt":"2024-09-04T00:20:06.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"dependabot[bot]","name":null,"path":"/apps/dependabot","primaryAvatarUrl":"https://avatars.githubusercontent.com/in/29110?s=80&v=4"},"commit":{"message":"Bump actions/download-artifact from 3 to 4.1.7 in /.github/workflows\n\nBumps [actions/download-artifact](https://github.com/actions/download-artifact) from 3 to 4.1.7.\n- [Release notes](https://github.com/actions/download-artifact/releases)\n- [Commits](https://github.com/actions/download-artifact/compare/v3...v4.1.7)\n\n---\nupdated-dependencies:\n- dependency-name: actions/download-artifact\n dependency-type: direct:production\n...\n\nSigned-off-by: dependabot[bot] ","shortMessageHtmlLink":"Bump actions/download-artifact from 3 to 4.1.7 in /.github/workflows"}},{"before":"fec3ca53a59904882e8911831234dcf436847570","after":"2f52d95cf28f72c8ae416f5d7df26b488dcda6a4","ref":"refs/heads/main","pushedAt":"2024-07-12T11:34:54.000Z","pushType":"pr_merge","commitsCount":3,"pusher":{"login":"jeromekelleher","name":"Jerome Kelleher","path":"/jeromekelleher","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2664569?s=80&v=4"},"commit":{"message":"Merge pull request #151 from daikitag/citation\n\nDOC: Citation","shortMessageHtmlLink":"Merge pull request #151 from daikitag/citation"}},{"before":"0e33bee9d3bf6a55110c462caefc1becb7a96155","after":"fec3ca53a59904882e8911831234dcf436847570","ref":"refs/heads/main","pushedAt":"2024-05-13T08:37:40.000Z","pushType":"pr_merge","commitsCount":2,"pusher":{"login":"jeromekelleher","name":"Jerome Kelleher","path":"/jeromekelleher","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2664569?s=80&v=4"},"commit":{"message":"Merge pull request #150 from daikitag/test-documentation\n\nUpdate contributing.md","shortMessageHtmlLink":"Merge pull request #150 from daikitag/test-documentation"}},{"before":"7aa0cb432936168e14976f7f8d9bfdacc29cc029","after":"0e33bee9d3bf6a55110c462caefc1becb7a96155","ref":"refs/heads/main","pushedAt":"2024-04-05T15:33:41.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"mergify[bot]","name":null,"path":"/apps/mergify","primaryAvatarUrl":"https://avatars.githubusercontent.com/in/10562?s=80&v=4"},"commit":{"message":"Fix codecov","shortMessageHtmlLink":"Fix codecov"}},{"before":"21b2bc5da4bb5a42850481cae053a01b3472a999","after":"7aa0cb432936168e14976f7f8d9bfdacc29cc029","ref":"refs/heads/main","pushedAt":"2024-03-07T14:36:33.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"mergify[bot]","name":null,"path":"/apps/mergify","primaryAvatarUrl":"https://avatars.githubusercontent.com/in/10562?s=80&v=4"},"commit":{"message":"Version 0.1.0 Release\n\nUpdate the changelog for version0.1.0 release","shortMessageHtmlLink":"Version 0.1.0 Release"}},{"before":"255539a2edad00ccfc97be8112de8033b36b0255","after":"21b2bc5da4bb5a42850481cae053a01b3472a999","ref":"refs/heads/main","pushedAt":"2024-03-06T09:15:26.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"mergify[bot]","name":null,"path":"/apps/mergify","primaryAvatarUrl":"https://avatars.githubusercontent.com/in/10562?s=80&v=4"},"commit":{"message":"INFRA: Verification\n\nStatistical tests against external simulators","shortMessageHtmlLink":"INFRA: Verification"}},{"before":"4d65425e474d1a3e62980e42a5530fb017608e71","after":"255539a2edad00ccfc97be8112de8033b36b0255","ref":"refs/heads/main","pushedAt":"2024-02-28T09:20:58.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"mergify[bot]","name":null,"path":"/apps/mergify","primaryAvatarUrl":"https://avatars.githubusercontent.com/in/10562?s=80&v=4"},"commit":{"message":"CODE: normalise_genetic_value\n\nAdd new function to normalise genetic value","shortMessageHtmlLink":"CODE: normalise_genetic_value"}},{"before":"33ac5f4722cccc28182b8a3b5a258897be175c2b","after":"4d65425e474d1a3e62980e42a5530fb017608e71","ref":"refs/heads/main","pushedAt":"2024-02-20T14:12:45.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"mergify[bot]","name":null,"path":"/apps/mergify","primaryAvatarUrl":"https://avatars.githubusercontent.com/in/10562?s=80&v=4"},"commit":{"message":"DOC: Numericalisation-genotype\n\nDocumentation for modifying the numericalisation of genotypes.","shortMessageHtmlLink":"DOC: Numericalisation-genotype"}},{"before":"0cd2752b27526c4417065b14e99b5ebe793321be","after":"33ac5f4722cccc28182b8a3b5a258897be175c2b","ref":"refs/heads/main","pushedAt":"2024-02-20T12:08:37.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"mergify[bot]","name":null,"path":"/apps/mergify","primaryAvatarUrl":"https://avatars.githubusercontent.com/in/10562?s=80&v=4"},"commit":{"message":"DOC: Minor modification\n\nMinor modification to documentation.","shortMessageHtmlLink":"DOC: Minor modification"}},{"before":"bd412ee5cfd089cbe2ef3d992153bef634e869c9","after":"0cd2752b27526c4417065b14e99b5ebe793321be","ref":"refs/heads/main","pushedAt":"2024-02-19T11:13:35.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"mergify[bot]","name":null,"path":"/apps/mergify","primaryAvatarUrl":"https://avatars.githubusercontent.com/in/10562?s=80&v=4"},"commit":{"message":"DOC: Freq-dep\n\nModify the frequency dependence explanation in the tstrait documentation, as it is not reflecting the truth.","shortMessageHtmlLink":"DOC: Freq-dep"}},{"before":"905af3f21abcd2103fa2e09dbd02f0910a939230","after":"bd412ee5cfd089cbe2ef3d992153bef634e869c9","ref":"refs/heads/main","pushedAt":"2024-02-13T09:53:51.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"mergify[bot]","name":null,"path":"/apps/mergify","primaryAvatarUrl":"https://avatars.githubusercontent.com/in/10562?s=80&v=4"},"commit":{"message":"INFRA: Exact tests\n\nConduct exact tests against AlphaSimR, simplePHENOTYPES and the simulation framework described in ARG-Needle paper.","shortMessageHtmlLink":"INFRA: Exact tests"}},{"before":"a58e8862fa1e2c6cebf7e5032f51ddbb3a51f5c5","after":"905af3f21abcd2103fa2e09dbd02f0910a939230","ref":"refs/heads/main","pushedAt":"2024-02-13T09:50:41.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"mergify[bot]","name":null,"path":"/apps/mergify","primaryAvatarUrl":"https://avatars.githubusercontent.com/in/10562?s=80&v=4"},"commit":{"message":"INFRA: multithreading\n\nAdd multithreading in `validation.py`.","shortMessageHtmlLink":"INFRA: multithreading"}},{"before":"44169f6ead40f082f3d1671ab5e14030b6b55fa7","after":"a58e8862fa1e2c6cebf7e5032f51ddbb3a51f5c5","ref":"refs/heads/main","pushedAt":"2024-02-13T09:21:06.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"mergify[bot]","name":null,"path":"/apps/mergify","primaryAvatarUrl":"https://avatars.githubusercontent.com/in/10562?s=80&v=4"},"commit":{"message":"INFRA: qqplot\n\nAdd density plots when plotting qqplots to compare two data.","shortMessageHtmlLink":"INFRA: qqplot"}},{"before":"19454d655b9720f55f78661ca58b3e65ed9ca4e1","after":"44169f6ead40f082f3d1671ab5e14030b6b55fa7","ref":"refs/heads/main","pushedAt":"2024-02-12T16:27:49.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"mergify[bot]","name":null,"path":"/apps/mergify","primaryAvatarUrl":"https://avatars.githubusercontent.com/in/10562?s=80&v=4"},"commit":{"message":"CODE: ddof\n\nAdd delta degrees of freedom input in `normalise_phenotype` function.","shortMessageHtmlLink":"CODE: ddof"}},{"before":"34dcec46ef302c4d0c2c3d9c15c307184b29722a","after":"19454d655b9720f55f78661ca58b3e65ed9ca4e1","ref":"refs/heads/main","pushedAt":"2024-02-12T16:14:17.000Z","pushType":"pr_merge","commitsCount":2,"pusher":{"login":"jeromekelleher","name":"Jerome Kelleher","path":"/jeromekelleher","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2664569?s=80&v=4"},"commit":{"message":"Merge pull request #134 from daikitag/genetic\n\nCODE: Genetic value","shortMessageHtmlLink":"Merge pull request #134 from daikitag/genetic"}},{"before":"b372bdcd8576fc18eca0e380bd1e09b7c4b6b236","after":"34dcec46ef302c4d0c2c3d9c15c307184b29722a","ref":"refs/heads/main","pushedAt":"2024-02-06T17:03:57.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"mergify[bot]","name":null,"path":"/apps/mergify","primaryAvatarUrl":"https://avatars.githubusercontent.com/in/10562?s=80&v=4"},"commit":{"message":"CODE/DOC: normalise_phenotypes\n\nAdd `normalise_phenotype` function in tstrait.","shortMessageHtmlLink":"CODE/DOC: normalise_phenotypes"}},{"before":"b2f780e6fbe250cbbac12b2cf669a88dfdbc3dc1","after":"b372bdcd8576fc18eca0e380bd1e09b7c4b6b236","ref":"refs/heads/main","pushedAt":"2024-02-06T14:18:45.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"mergify[bot]","name":null,"path":"/apps/mergify","primaryAvatarUrl":"https://avatars.githubusercontent.com/in/10562?s=80&v=4"},"commit":{"message":"CODE: causal_sites\n\nAdd option to simulate causal sites by indicating the causal site IDs.","shortMessageHtmlLink":"CODE: causal_sites"}},{"before":"f604cbc05bc7f94f05c4c2a668445e58761efa06","after":"b2f780e6fbe250cbbac12b2cf669a88dfdbc3dc1","ref":"refs/heads/main","pushedAt":"2024-02-01T09:21:05.000Z","pushType":"pr_merge","commitsCount":2,"pusher":{"login":"jeromekelleher","name":"Jerome Kelleher","path":"/jeromekelleher","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2664569?s=80&v=4"},"commit":{"message":"Merge pull request #129 from daikitag/verification\n\nVerification","shortMessageHtmlLink":"Merge pull request #129 from daikitag/verification"}},{"before":"fdd1a81b5e0b57ec46cdf64de5c7ad13524caa24","after":"f604cbc05bc7f94f05c4c2a668445e58761efa06","ref":"refs/heads/main","pushedAt":"2024-01-24T10:16:37.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"mergify[bot]","name":null,"path":"/apps/mergify","primaryAvatarUrl":"https://avatars.githubusercontent.com/in/10562?s=80&v=4"},"commit":{"message":"CODE: causal_sites\n\nAdd option to simulate causal sites by indicating the causal site IDs","shortMessageHtmlLink":"CODE: causal_sites"}},{"before":"7b7af67d7b92c05db115187b2a65c3c87410cd31","after":"fdd1a81b5e0b57ec46cdf64de5c7ad13524caa24","ref":"refs/heads/main","pushedAt":"2023-12-04T09:41:39.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"mergify[bot]","name":null,"path":"/apps/mergify","primaryAvatarUrl":"https://avatars.githubusercontent.com/in/10562?s=80&v=4"},"commit":{"message":"DOC: Minor changes\n\nMinor changes to documentation","shortMessageHtmlLink":"DOC: Minor changes"}},{"before":"913ccb169d3def280500c58b6d9c02031f73f34c","after":"7b7af67d7b92c05db115187b2a65c3c87410cd31","ref":"refs/heads/main","pushedAt":"2023-12-01T09:21:28.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"mergify[bot]","name":null,"path":"/apps/mergify","primaryAvatarUrl":"https://avatars.githubusercontent.com/in/10562?s=80&v=4"},"commit":{"message":"Update effect-size.md\n\nUpdate input parameter name","shortMessageHtmlLink":"Update effect-size.md"}},{"before":"29be2327a73a439b1695636753db5e2a86c50a57","after":"913ccb169d3def280500c58b6d9c02031f73f34c","ref":"refs/heads/main","pushedAt":"2023-11-22T12:30:54.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"mergify[bot]","name":null,"path":"/apps/mergify","primaryAvatarUrl":"https://avatars.githubusercontent.com/in/10562?s=80&v=4"},"commit":{"message":"CODE: signature\n\nUpdate signature of `sim_trait`, `sim_env`, and `sim_phenotype`.","shortMessageHtmlLink":"CODE: signature"}},{"before":"3953f0a16ad9ad6c315e3efedccc32923a1710f8","after":"29be2327a73a439b1695636753db5e2a86c50a57","ref":"refs/heads/main","pushedAt":"2023-11-21T17:00:25.000Z","pushType":"pr_merge","commitsCount":2,"pusher":{"login":"jeromekelleher","name":"Jerome Kelleher","path":"/jeromekelleher","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/2664569?s=80&v=4"},"commit":{"message":"Merge pull request #119 from daikitag/paragma\n\nCODE: codecov","shortMessageHtmlLink":"Merge pull request #119 from daikitag/paragma"}},{"before":"18837bdf06bca6157bc39d95a9c951cd6ce78476","after":"3953f0a16ad9ad6c315e3efedccc32923a1710f8","ref":"refs/heads/main","pushedAt":"2023-11-21T12:58:55.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"mergify[bot]","name":null,"path":"/apps/mergify","primaryAvatarUrl":"https://avatars.githubusercontent.com/in/10562?s=80&v=4"},"commit":{"message":"CODE/DOC: genetic_value\n\nCreate genetic_value function that gives a deterministic result based on the trait dataframe. Also modify the sim_phenotype function.","shortMessageHtmlLink":"CODE/DOC: genetic_value"}},{"before":"74c03d49ce350c489092334215556c6c297767b1","after":"18837bdf06bca6157bc39d95a9c951cd6ce78476","ref":"refs/heads/main","pushedAt":"2023-11-21T11:51:15.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"mergify[bot]","name":null,"path":"/apps/mergify","primaryAvatarUrl":"https://avatars.githubusercontent.com/in/10562?s=80&v=4"},"commit":{"message":"DOC: Docstring of trait model\n\nUpdate the docstring of trait model, as it will be used in the documentation to explain the corresponding model.","shortMessageHtmlLink":"DOC: Docstring of trait model"}},{"before":"f202374d7d7945da66d284da4ab2c9f9699c6a48","after":"74c03d49ce350c489092334215556c6c297767b1","ref":"refs/heads/main","pushedAt":"2023-11-21T10:59:16.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"mergify[bot]","name":null,"path":"/apps/mergify","primaryAvatarUrl":"https://avatars.githubusercontent.com/in/10562?s=80&v=4"},"commit":{"message":"DOC: updated doc for sim_trait\n\nDOC: updated doc for sim_trait","shortMessageHtmlLink":"DOC: updated doc for sim_trait"}},{"before":"0e49d806d80fca4c6d3c4ed9454ff5711f0a8436","after":"f202374d7d7945da66d284da4ab2c9f9699c6a48","ref":"refs/heads/main","pushedAt":"2023-11-21T09:18:35.000Z","pushType":"pr_merge","commitsCount":1,"pusher":{"login":"mergify[bot]","name":null,"path":"/apps/mergify","primaryAvatarUrl":"https://avatars.githubusercontent.com/in/10562?s=80&v=4"},"commit":{"message":"CODE: sim_trait\n\nUpdate the sim_trait function.","shortMessageHtmlLink":"CODE: sim_trait"}}],"hasNextPage":true,"hasPreviousPage":false,"activityType":"all","actor":null,"timePeriod":"all","sort":"DESC","perPage":30,"cursor":"Y3Vyc29yOnYyOpK7MjAyNC0wOS0wNFQwOTo0MTo1OC4wMDAwMDBazwAAAASshGO6","startCursor":"Y3Vyc29yOnYyOpK7MjAyNC0wOS0wNFQwOTo0MTo1OC4wMDAwMDBazwAAAASshGO6","endCursor":"Y3Vyc29yOnYyOpK7MjAyMy0xMS0yMVQwOToxODozNS4wMDAwMDBazwAAAAO0ERp2"}},"title":"Activity · tskit-dev/tstrait"}