{"id":169945,"name":null,"description":"Probabilistic modeling of high-dimensional binary data in JAX","url":"https://github.com/cbg-ethz/jnotype","last_synced_at":"2025-09-09T21:15:48.473Z","repository":{"id":145136484,"uuid":"604139151","full_name":"cbg-ethz/Jnotype","owner":"cbg-ethz","description":"Probabilistic modeling of high-dimensional binary data in JAX","archived":false,"fork":false,"pushed_at":"2025-07-13T20:42:25.000Z","size":293,"stargazers_count":3,"open_issues_count":9,"forks_count":0,"subscribers_count":1,"default_branch":"main","last_synced_at":"2025-07-13T22:23:16.254Z","etag":null,"topics":["bayesian-statistics","cancer-genomics","clustering","ideal-point-estimation","jax","probabilistic-machine-learning","unsupervised-learning"],"latest_commit_sha":null,"homepage":"","language":"Python","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"other","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/cbg-ethz.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":"LICENSE","code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null,"zenodo":null}},"created_at":"2023-02-20T12:19:40.000Z","updated_at":"2025-04-25T08:47:56.000Z","dependencies_parsed_at":"2023-06-09T10:15:25.806Z","dependency_job_id":"9fa24efe-ca5b-40e4-97be-0ef4a14f858c","html_url":"https://github.com/cbg-ethz/Jnotype","commit_stats":null,"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/cbg-ethz/Jnotype","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cbg-ethz%2FJnotype","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cbg-ethz%2FJnotype/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cbg-ethz%2FJnotype/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cbg-ethz%2FJnotype/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/cbg-ethz","download_url":"https://codeload.github.com/cbg-ethz/Jnotype/tar.gz/refs/heads/main","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cbg-ethz%2FJnotype/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":274365945,"owners_count":25272293,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","status":"online","status_checked_at":"2025-09-09T02:00:10.223Z","response_time":80,"last_error":null,"robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":true,"can_crawl_api":true,"host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"owner":{"login":"cbg-ethz","name":"Computational Biology Group (CBG)","uuid":"12068026","kind":"organization","description":"Beerenwinkel Lab at ETH Zurich","email":null,"website":"https://www.bsse.ethz.ch/cbg","location":"Basel, Switzerland","twitter":"cbg_ethz","company":null,"icon_url":"https://avatars.githubusercontent.com/u/12068026?v=4","repositories_count":91,"last_synced_at":"2024-03-26T08:09:56.763Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/cbg-ethz","funding_links":[],"total_stars":745,"followers":45,"following":0,"created_at":"2022-11-03T10:35:20.159Z","updated_at":"2024-03-26T08:10:12.972Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/cbg-ethz","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/cbg-ethz/repositories"},"packages":[],"commits":{"id":6098536,"full_name":"cbg-ethz/jnotype","default_branch":"main","committers":[{"name":"Paweł Czyż","email":"pawelpiotr.czyz@ai.ethz.ch","login":"pawel-czyz","count":38}],"total_commits":38,"total_committers":1,"total_bot_commits":0,"total_bot_committers":0,"mean_commits":38.0,"dds":0.0,"past_year_committers":[{"name":"Paweł Czyż","email":"pawelpiotr.czyz@ai.ethz.ch","login":"pawel-czyz","count":11}],"past_year_total_commits":11,"past_year_total_committers":1,"past_year_total_bot_commits":0,"past_year_total_bot_committers":0,"past_year_mean_commits":11.0,"past_year_dds":0.0,"last_synced_at":"2025-04-29T02:23:33.021Z","last_synced_commit":"15add7c503761f68770c33391660f0cca7139e72","created_at":"2024-11-17T08:31:56.797Z","updated_at":"2025-04-29T02:23:33.021Z","commits_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub/repositories/cbg-ethz%2Fjnotype/commits","host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-09T00:17:06.873Z","repositories_count":5537895,"commits_count":874610347,"contributors_count":32275623,"owners_count":918967,"icon_url":"https://github.com/github.png","host_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub/repositories"}},"issues_stats":{"full_name":"cbg-ethz/jnotype","html_url":"https://github.com/cbg-ethz/jnotype","last_synced_at":"2025-04-28T13:09:34.258Z","status":"error","issues_count":9,"pull_requests_count":27,"avg_time_to_close_issue":27511208.0,"avg_time_to_close_pull_request":1303350.0384615385,"issues_closed_count":2,"pull_requests_closed_count":26,"pull_request_authors_count":1,"issue_authors_count":1,"avg_comments_per_issue":0.1111111111111111,"avg_comments_per_pull_request":0.0,"merged_pull_requests_count":26,"bot_issues_count":0,"bot_pull_requests_count":0,"past_year_issues_count":5,"past_year_pull_requests_count":9,"past_year_avg_time_to_close_issue":null,"past_year_avg_time_to_close_pull_request":1456411.0,"past_year_issues_closed_count":0,"past_year_pull_requests_closed_count":8,"past_year_pull_request_authors_count":1,"past_year_issue_authors_count":1,"past_year_avg_comments_per_issue":0.0,"past_year_avg_comments_per_pull_request":0.0,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":0,"past_year_merged_pull_requests_count":8,"created_at":"2024-11-17T08:31:58.787Z","updated_at":"2025-09-02T16:23:47.115Z","repository_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/cbg-ethz%2Fjnotype","issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/cbg-ethz%2Fjnotype/issues","issue_labels_count":{"🚂type: enhancement":3,"⏳priority: low":2,"🔡action: coding":2,"🐘effort: large":1,"⏳priority: high":1,"🐇effort: small":1,"🦮effort: medium":1},"pull_request_labels_count":{"🚂type: enhancement":13,"🔡action: coding":10,"⏳priority: high":9,"🦮effort: medium":7,"🔡action: refactoring":3,"🐇effort: small":3,"🐘effort: large":2},"issue_author_associations_count":{"MEMBER":7},"pull_request_author_associations_count":{"MEMBER":38,"COLLABORATOR":1},"issue_authors":{"pawel-czyz":7},"pull_request_authors":{"pawel-czyz":38,"allenxzhao":1},"host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-07T00:00:10.533Z","repositories_count":10149961,"issues_count":32053064,"pull_requests_count":100021428,"authors_count":10721755,"icon_url":"https://github.com/github.png","host_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories","owners_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/owners","authors_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors"},"past_year_issue_labels_count":{},"past_year_pull_request_labels_count":{"🔡action: coding":1,"🐇effort: small":1},"past_year_issue_author_associations_count":{},"past_year_pull_request_author_associations_count":{"MEMBER":11,"COLLABORATOR":1},"past_year_issue_authors":{},"past_year_pull_request_authors":{"pawel-czyz":11,"allenxzhao":1},"maintainers":[{"login":"pawel-czyz","count":45,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/pawel-czyz"},{"login":"allenxzhao","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/allenxzhao"}],"active_maintainers":[{"login":"pawel-czyz","count":11,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/pawel-czyz"},{"login":"allenxzhao","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/allenxzhao"}]},"events":{"total":{"WatchEvent":1,"DeleteEvent":7,"MemberEvent":1,"PushEvent":33,"PullRequestEvent":15,"CreateEvent":9},"last_year":{"WatchEvent":1,"DeleteEvent":7,"MemberEvent":1,"PushEvent":33,"PullRequestEvent":15,"CreateEvent":9}},"keywords":["bayesian-statistics","cancer-genomics","clustering","ideal-point-estimation","jax","probabilistic-machine-learning","unsupervised-learning"],"dependencies":[{"ecosystem":"actions","filepath":".github/workflows/test.yml","sha":null,"kind":"manifest","created_at":"2023-06-09T10:15:25.498Z","updated_at":"2023-06-09T10:15:25.498Z","repository_link":"https://github.com/cbg-ethz/Jnotype/blob/main/.github/workflows/test.yml","dependencies":[{"id":10524498922,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v3","direct":true,"kind":"composite","optional":false},{"id":10524498923,"package_name":"psf/black","ecosystem":"actions","requirements":"stable","direct":true,"kind":"composite","optional":false},{"id":10524498924,"package_name":"actions/setup-python","ecosystem":"actions","requirements":"v4","direct":true,"kind":"composite","optional":false},{"id":10524498925,"package_name":"snok/install-poetry","ecosystem":"actions","requirements":"v1","direct":true,"kind":"composite","optional":false},{"id":10524498926,"package_name":"actions/cache","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"pypi","filepath":"pyproject.toml","sha":null,"kind":"manifest","created_at":"2023-06-09T10:15:25.570Z","updated_at":"2023-06-09T10:15:25.570Z","repository_link":"https://github.com/cbg-ethz/Jnotype/blob/main/pyproject.toml","dependencies":[{"id":10524499056,"package_name":"python","ecosystem":"pypi","requirements":"^3.9","direct":true,"kind":"runtime","optional":false},{"id":10524499057,"package_name":"pymc","ecosystem":"pypi","requirements":"\u003e=5.0","direct":true,"kind":"runtime","optional":false},{"id":10524499058,"package_name":"numpy","ecosystem":"pypi","requirements":"^1.24.2","direct":true,"kind":"runtime","optional":false},{"id":10524499059,"package_name":"jaxtyping","ecosystem":"pypi","requirements":"^0.2.14","direct":true,"kind":"runtime","optional":false},{"id":10524499060,"package_name":"jax","ecosystem":"pypi","requirements":"^0.4.6","direct":true,"kind":"runtime","optional":false},{"id":10524499061,"package_name":"jaxlib","ecosystem":"pypi","requirements":"^0.4.6","direct":true,"kind":"runtime","optional":false},{"id":10524499062,"package_name":"matplotlib","ecosystem":"pypi","requirements":"^3.7.1","direct":true,"kind":"runtime","optional":false},{"id":10524499063,"package_name":"numpyro","ecosystem":"pypi","requirements":"^0.11.0","direct":true,"kind":"runtime","optional":false},{"id":10524499064,"package_name":"polyagamma","ecosystem":"pypi","requirements":"^1.3.5","direct":true,"kind":"runtime","optional":false},{"id":10524499065,"package_name":"arviz","ecosystem":"pypi","requirements":"^0.15.1","direct":true,"kind":"runtime","optional":false},{"id":10524499066,"package_name":"xarray","ecosystem":"pypi","requirements":"^2023.3.0","direct":true,"kind":"runtime","optional":false},{"id":10524499067,"package_name":"tqdm","ecosystem":"pypi","requirements":"^4.65.0","direct":true,"kind":"runtime","optional":false}]},{"ecosystem":"pypi","filepath":"requirements.txt","sha":null,"kind":"manifest","created_at":"2023-06-09T10:15:25.669Z","updated_at":"2023-06-09T10:15:25.669Z","repository_link":"https://github.com/cbg-ethz/Jnotype/blob/main/requirements.txt","dependencies":[{"id":10524499196,"package_name":"arviz","ecosystem":"pypi","requirements":"==0.15.0","direct":true,"kind":"runtime","optional":false},{"id":10524499197,"package_name":"attrs","ecosystem":"pypi","requirements":"==22.2.0","direct":true,"kind":"runtime","optional":false},{"id":10524499198,"package_name":"cachetools","ecosystem":"pypi","requirements":"==5.3.0","direct":true,"kind":"runtime","optional":false},{"id":10524499199,"package_name":"cfgv","ecosystem":"pypi","requirements":"==3.3.1","direct":true,"kind":"runtime","optional":false},{"id":10524499200,"package_name":"click","ecosystem":"pypi","requirements":"==8.1.3","direct":true,"kind":"runtime","optional":false},{"id":10524499201,"package_name":"cloudpickle","ecosystem":"pypi","requirements":"==2.2.1","direct":true,"kind":"runtime","optional":false},{"id":10524499202,"package_name":"colorama","ecosystem":"pypi","requirements":"==0.4.6","direct":true,"kind":"runtime","optional":false},{"id":10524499203,"package_name":"cons","ecosystem":"pypi","requirements":"==0.4.5","direct":true,"kind":"runtime","optional":false},{"id":10524499204,"package_name":"contourpy","ecosystem":"pypi","requirements":"==1.0.7","direct":true,"kind":"runtime","optional":false},{"id":10524499205,"package_name":"coverage","ecosystem":"pypi","requirements":"==7.2.1","direct":true,"kind":"runtime","optional":false},{"id":10524499206,"package_name":"cycler","ecosystem":"pypi","requirements":"==0.11.0","direct":true,"kind":"runtime","optional":false},{"id":10524499207,"package_name":"distlib","ecosystem":"pypi","requirements":"==0.3.6","direct":true,"kind":"runtime","optional":false},{"id":10524499208,"package_name":"etuples","ecosystem":"pypi","requirements":"==0.3.8","direct":true,"kind":"runtime","optional":false},{"id":10524499209,"package_name":"exceptiongroup","ecosystem":"pypi","requirements":"==1.1.0","direct":true,"kind":"runtime","optional":false},{"id":10524499210,"package_name":"execnet","ecosystem":"pypi","requirements":"==1.9.0","direct":true,"kind":"runtime","optional":false},{"id":10524499211,"package_name":"fastprogress","ecosystem":"pypi","requirements":"==1.0.3","direct":true,"kind":"runtime","optional":false},{"id":10524499212,"package_name":"filelock","ecosystem":"pypi","requirements":"==3.9.0","direct":true,"kind":"runtime","optional":false},{"id":10524499213,"package_name":"fonttools","ecosystem":"pypi","requirements":"==4.38.0","direct":true,"kind":"runtime","optional":false},{"id":10524499214,"package_name":"h5netcdf","ecosystem":"pypi","requirements":"==1.1.0","direct":true,"kind":"runtime","optional":false},{"id":10524499215,"package_name":"h5py","ecosystem":"pypi","requirements":"==3.8.0","direct":true,"kind":"runtime","optional":false},{"id":10524499216,"package_name":"identify","ecosystem":"pypi","requirements":"==2.5.18","direct":true,"kind":"runtime","optional":false},{"id":10524499217,"package_name":"importlib-resources","ecosystem":"pypi","requirements":"==5.12.0","direct":true,"kind":"runtime","optional":false},{"id":10524499218,"package_name":"iniconfig","ecosystem":"pypi","requirements":"==2.0.0","direct":true,"kind":"runtime","optional":false},{"id":10524499219,"package_name":"interrogate","ecosystem":"pypi","requirements":"==1.5.0","direct":true,"kind":"runtime","optional":false},{"id":10524499220,"package_name":"kiwisolver","ecosystem":"pypi","requirements":"==1.4.4","direct":true,"kind":"runtime","optional":false},{"id":10524499221,"package_name":"logical-unification","ecosystem":"pypi","requirements":"==0.4.5","direct":true,"kind":"runtime","optional":false},{"id":10524499222,"package_name":"matplotlib","ecosystem":"pypi","requirements":"==3.7.0","direct":true,"kind":"runtime","optional":false},{"id":10524499223,"package_name":"minikanren","ecosystem":"pypi","requirements":"==1.0.3","direct":true,"kind":"runtime","optional":false},{"id":10524499224,"package_name":"multipledispatch","ecosystem":"pypi","requirements":"==0.6.0","direct":true,"kind":"runtime","optional":false},{"id":10524499225,"package_name":"nodeenv","ecosystem":"pypi","requirements":"==1.7.0","direct":true,"kind":"runtime","optional":false},{"id":10524499226,"package_name":"numpy","ecosystem":"pypi","requirements":"==1.24.2","direct":true,"kind":"runtime","optional":false},{"id":10524499227,"package_name":"packaging","ecosystem":"pypi","requirements":"==23.0","direct":true,"kind":"runtime","optional":false},{"id":10524499228,"package_name":"pandas","ecosystem":"pypi","requirements":"==1.5.3","direct":true,"kind":"runtime","optional":false},{"id":10524499229,"package_name":"pillow","ecosystem":"pypi","requirements":"==9.4.0","direct":true,"kind":"runtime","optional":false},{"id":10524499230,"package_name":"platformdirs","ecosystem":"pypi","requirements":"==3.0.0","direct":true,"kind":"runtime","optional":false},{"id":10524499231,"package_name":"pluggy","ecosystem":"pypi","requirements":"==1.0.0","direct":true,"kind":"runtime","optional":false},{"id":10524499232,"package_name":"pre-commit","ecosystem":"pypi","requirements":"==3.1.0","direct":true,"kind":"runtime","optional":false},{"id":10524499233,"package_name":"py","ecosystem":"pypi","requirements":"==1.11.0","direct":true,"kind":"runtime","optional":false},{"id":10524499234,"package_name":"pymc","ecosystem":"pypi","requirements":"==5.0.2","direct":true,"kind":"runtime","optional":false},{"id":10524499235,"package_name":"pyparsing","ecosystem":"pypi","requirements":"==3.0.9","direct":true,"kind":"runtime","optional":false},{"id":10524499236,"package_name":"pytensor","ecosystem":"pypi","requirements":"==2.9.1","direct":true,"kind":"runtime","optional":false},{"id":10524499237,"package_name":"pytest-cov","ecosystem":"pypi","requirements":"==4.0.0","direct":true,"kind":"runtime","optional":false},{"id":10524499238,"package_name":"pytest-xdist","ecosystem":"pypi","requirements":"==3.2.0","direct":true,"kind":"runtime","optional":false},{"id":10524499239,"package_name":"pytest","ecosystem":"pypi","requirements":"==7.2.1","direct":true,"kind":"runtime","optional":false},{"id":10524499240,"package_name":"python-dateutil","ecosystem":"pypi","requirements":"==2.8.2","direct":true,"kind":"runtime","optional":false},{"id":10524499241,"package_name":"pytz","ecosystem":"pypi","requirements":"==2022.7.1","direct":true,"kind":"runtime","optional":false},{"id":10524499242,"package_name":"pyyaml","ecosystem":"pypi","requirements":"==6.0","direct":true,"kind":"runtime","optional":false},{"id":10524499243,"package_name":"ruff","ecosystem":"pypi","requirements":"==0.0.253","direct":true,"kind":"runtime","optional":false},{"id":10524499244,"package_name":"scipy","ecosystem":"pypi","requirements":"==1.9.3","direct":true,"kind":"runtime","optional":false},{"id":10524499245,"package_name":"setuptools","ecosystem":"pypi","requirements":"==67.4.0","direct":true,"kind":"runtime","optional":false},{"id":10524499246,"package_name":"six","ecosystem":"pypi","requirements":"==1.16.0","direct":true,"kind":"runtime","optional":false},{"id":10524499247,"package_name":"tabulate","ecosystem":"pypi","requirements":"==0.9.0","direct":true,"kind":"runtime","optional":false},{"id":10524499248,"package_name":"toml","ecosystem":"pypi","requirements":"==0.10.2","direct":true,"kind":"runtime","optional":false},{"id":10524499249,"package_name":"tomli","ecosystem":"pypi","requirements":"==2.0.1","direct":true,"kind":"runtime","optional":false},{"id":10524499250,"package_name":"toolz","ecosystem":"pypi","requirements":"==0.12.0","direct":true,"kind":"runtime","optional":false},{"id":10524499251,"package_name":"typing-extensions","ecosystem":"pypi","requirements":"==4.5.0","direct":true,"kind":"runtime","optional":false},{"id":10524499252,"package_name":"virtualenv","ecosystem":"pypi","requirements":"==20.19.0","direct":true,"kind":"runtime","optional":false},{"id":10524499253,"package_name":"xarray-einstats","ecosystem":"pypi","requirements":"==0.5.1","direct":true,"kind":"runtime","optional":false},{"id":10524499254,"package_name":"xarray","ecosystem":"pypi","requirements":"==2023.2.0","direct":true,"kind":"runtime","optional":false},{"id":10524499255,"package_name":"zipp","ecosystem":"pypi","requirements":"==3.15.0","direct":true,"kind":"runtime","optional":false}]}],"score":2.4849066497880004,"created_at":"2025-09-09T01:24:33.167Z","updated_at":"2025-10-07T08:39:45.205Z","avatar_url":"https://github.com/cbg-ethz.png","language":"Python","category":null,"sub_category":null,"monthly_downloads":0,"funding_links":[],"readme_doi_urls":[],"works":{},"citation_counts":{},"total_citations":0,"keywords_from_contributors":[],"project_url":"https://science.ecosyste.ms/api/v1/projects/169945","html_url":"https://science.ecosyste.ms/projects/169945"}