{"id":55004,"name":"tcfinder","description":"A lightweight tool to find clusters of samples within a phylogeny","url":"https://github.com/pathogenomics-lab/tcfinder","last_synced_at":"2025-09-05T13:41:47.692Z","repository":{"id":244385880,"uuid":"813850344","full_name":"PathoGenOmics-Lab/tcfinder","owner":"PathoGenOmics-Lab","description":"A lightweight tool to find clusters of samples within a phylogeny","archived":false,"fork":false,"pushed_at":"2025-05-02T11:48:07.000Z","size":168,"stargazers_count":1,"open_issues_count":0,"forks_count":0,"subscribers_count":1,"default_branch":"main","last_synced_at":"2025-05-02T12:43:51.818Z","etag":null,"topics":["bioconda","bioinformatics","clades","clustering","phylogenetics","rust"],"latest_commit_sha":null,"homepage":"","language":"Rust","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"gpl-3.0","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/PathoGenOmics-Lab.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":"LICENSE","code_of_conduct":null,"threat_model":null,"audit":null,"citation":"CITATION.cff","codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null,"zenodo":null}},"created_at":"2024-06-11T21:39:11.000Z","updated_at":"2025-05-02T11:48:10.000Z","dependencies_parsed_at":"2024-06-14T12:09:18.382Z","dependency_job_id":"04f7a31c-6bdd-4799-9a88-1b074e87d3ce","html_url":"https://github.com/PathoGenOmics-Lab/tcfinder","commit_stats":null,"previous_names":["pathogenomics-lab/tcfinder"],"tags_count":1,"template":false,"template_full_name":null,"purl":"pkg:github/PathoGenOmics-Lab/tcfinder","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/PathoGenOmics-Lab%2Ftcfinder","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/PathoGenOmics-Lab%2Ftcfinder/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/PathoGenOmics-Lab%2Ftcfinder/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/PathoGenOmics-Lab%2Ftcfinder/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/PathoGenOmics-Lab","download_url":"https://codeload.github.com/PathoGenOmics-Lab/tcfinder/tar.gz/refs/heads/main","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/PathoGenOmics-Lab%2Ftcfinder/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":273767031,"owners_count":25164459,"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":"2025-09-05T02:00:09.113Z","response_time":402,"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":"PathoGenOmics-Lab","name":"PathoGenOmics Lab","uuid":"134300128","kind":"organization","description":"","email":null,"website":"https://www.uv.es/pathogenomic","location":"Spain","twitter":"gen_UV","company":null,"icon_url":"https://avatars.githubusercontent.com/u/134300128?v=4","repositories_count":1,"last_synced_at":"2023-06-02T08:29:30.155Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/PathoGenOmics-Lab","funding_links":[],"total_stars":null,"followers":null,"following":null,"created_at":"2023-06-02T08:29:30.157Z","updated_at":"2023-06-02T08:29:30.157Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/PathoGenOmics-Lab","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/PathoGenOmics-Lab/repositories"},"packages":[],"commits":{"message":"Repository syncing started."},"issues_stats":{"full_name":"pathogenomics-lab/tcfinder","html_url":"https://github.com/pathogenomics-lab/tcfinder","last_synced_at":null,"status":null,"issues_count":null,"pull_requests_count":null,"avg_time_to_close_issue":null,"avg_time_to_close_pull_request":null,"issues_closed_count":null,"pull_requests_closed_count":null,"pull_request_authors_count":null,"issue_authors_count":null,"avg_comments_per_issue":null,"avg_comments_per_pull_request":null,"merged_pull_requests_count":null,"bot_issues_count":null,"bot_pull_requests_count":null,"past_year_issues_count":null,"past_year_pull_requests_count":null,"past_year_avg_time_to_close_issue":null,"past_year_avg_time_to_close_pull_request":null,"past_year_issues_closed_count":null,"past_year_pull_requests_closed_count":null,"past_year_pull_request_authors_count":null,"past_year_issue_authors_count":null,"past_year_avg_comments_per_issue":null,"past_year_avg_comments_per_pull_request":null,"past_year_bot_issues_count":null,"past_year_bot_pull_requests_count":null,"past_year_merged_pull_requests_count":null,"created_at":"2025-09-05T13:41:00.311Z","updated_at":"2025-09-05T13:41:00.311Z","repository_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/pathogenomics-lab%2Ftcfinder","issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/pathogenomics-lab%2Ftcfinder/issues","issue_labels_count":{},"pull_request_labels_count":{},"issue_author_associations_count":{},"pull_request_author_associations_count":{},"issue_authors":{},"pull_request_authors":{},"host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-05T00:00:10.444Z","repositories_count":10100117,"issues_count":31473266,"pull_requests_count":97445500,"authors_count":10702683,"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":{},"past_year_issue_author_associations_count":{},"past_year_pull_request_author_associations_count":{},"past_year_issue_authors":{},"past_year_pull_request_authors":{},"maintainers":[],"active_maintainers":[]},"events":{"total":{"PushEvent":1},"last_year":{"PushEvent":1}},"keywords":["bioconda","bioinformatics","clades","clustering","phylogenetics","rust"],"dependencies":[{"ecosystem":"actions","filepath":".github/workflows/build.yml","sha":null,"kind":"manifest","created_at":"2024-06-14T12:09:16.853Z","updated_at":"2024-06-14T12:09:16.853Z","repository_link":"https://github.com/PathoGenOmics-Lab/tcfinder/blob/main/.github/workflows/build.yml","dependencies":[{"id":18609013226,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v4","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/test.yml","sha":null,"kind":"manifest","created_at":"2024-06-14T12:09:17.189Z","updated_at":"2024-06-14T12:09:17.189Z","repository_link":"https://github.com/PathoGenOmics-Lab/tcfinder/blob/main/.github/workflows/test.yml","dependencies":[{"id":18609013249,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v4","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"cargo","filepath":"Cargo.lock","sha":null,"kind":"lockfile","created_at":"2024-06-14T12:09:17.408Z","updated_at":"2024-06-14T12:09:17.408Z","repository_link":"https://github.com/PathoGenOmics-Lab/tcfinder/blob/main/Cargo.lock","dependencies":[{"id":18609013262,"package_name":"anstream","ecosystem":"cargo","requirements":"0.6.14","direct":false,"kind":"runtime","optional":false},{"id":18609013263,"package_name":"anstyle","ecosystem":"cargo","requirements":"1.0.7","direct":false,"kind":"runtime","optional":false},{"id":18609013264,"package_name":"anstyle-parse","ecosystem":"cargo","requirements":"0.2.4","direct":false,"kind":"runtime","optional":false},{"id":18609013265,"package_name":"anstyle-query","ecosystem":"cargo","requirements":"1.1.0","direct":false,"kind":"runtime","optional":false},{"id":18609013266,"package_name":"anstyle-wincon","ecosystem":"cargo","requirements":"3.0.3","direct":false,"kind":"runtime","optional":false},{"id":18609013267,"package_name":"clap","ecosystem":"cargo","requirements":"4.5.7","direct":false,"kind":"runtime","optional":false},{"id":18609013268,"package_name":"clap_builder","ecosystem":"cargo","requirements":"4.5.7","direct":false,"kind":"runtime","optional":false},{"id":18609013269,"package_name":"clap_derive","ecosystem":"cargo","requirements":"4.5.5","direct":false,"kind":"runtime","optional":false},{"id":18609013270,"package_name":"clap_lex","ecosystem":"cargo","requirements":"0.7.1","direct":false,"kind":"runtime","optional":false},{"id":18609013271,"package_name":"colorchoice","ecosystem":"cargo","requirements":"1.0.1","direct":false,"kind":"runtime","optional":false},{"id":18609013272,"package_name":"csv","ecosystem":"cargo","requirements":"1.3.0","direct":false,"kind":"runtime","optional":false},{"id":18609013273,"package_name":"csv-core","ecosystem":"cargo","requirements":"0.1.11","direct":false,"kind":"runtime","optional":false},{"id":18609013274,"package_name":"deranged","ecosystem":"cargo","requirements":"0.3.11","direct":false,"kind":"runtime","optional":false},{"id":18609013275,"package_name":"equivalent","ecosystem":"cargo","requirements":"1.0.1","direct":false,"kind":"runtime","optional":false},{"id":18609013276,"package_name":"fixedbitset","ecosystem":"cargo","requirements":"0.4.2","direct":false,"kind":"runtime","optional":false},{"id":18609013277,"package_name":"hashbrown","ecosystem":"cargo","requirements":"0.14.5","direct":false,"kind":"runtime","optional":false},{"id":18609013278,"package_name":"heck","ecosystem":"cargo","requirements":"0.5.0","direct":false,"kind":"runtime","optional":false},{"id":18609013279,"package_name":"indexmap","ecosystem":"cargo","requirements":"2.2.6","direct":false,"kind":"runtime","optional":false},{"id":18609013280,"package_name":"is_terminal_polyfill","ecosystem":"cargo","requirements":"1.70.0","direct":false,"kind":"runtime","optional":false},{"id":18609013281,"package_name":"itoa","ecosystem":"cargo","requirements":"1.0.11","direct":false,"kind":"runtime","optional":false},{"id":18609013282,"package_name":"libc","ecosystem":"cargo","requirements":"0.2.155","direct":false,"kind":"runtime","optional":false},{"id":18609013283,"package_name":"log","ecosystem":"cargo","requirements":"0.4.21","direct":false,"kind":"runtime","optional":false},{"id":18609013284,"package_name":"memchr","ecosystem":"cargo","requirements":"2.7.2","direct":false,"kind":"runtime","optional":false},{"id":18609013285,"package_name":"num-conv","ecosystem":"cargo","requirements":"0.1.0","direct":false,"kind":"runtime","optional":false},{"id":18609013286,"package_name":"num_threads","ecosystem":"cargo","requirements":"0.1.7","direct":false,"kind":"runtime","optional":false},{"id":18609013287,"package_name":"petgraph","ecosystem":"cargo","requirements":"0.6.5","direct":false,"kind":"runtime","optional":false},{"id":18609013288,"package_name":"powerfmt","ecosystem":"cargo","requirements":"0.2.0","direct":false,"kind":"runtime","optional":false},{"id":18609013289,"package_name":"proc-macro2","ecosystem":"cargo","requirements":"1.0.85","direct":false,"kind":"runtime","optional":false},{"id":18609013290,"package_name":"quote","ecosystem":"cargo","requirements":"1.0.36","direct":false,"kind":"runtime","optional":false},{"id":18609013291,"package_name":"ryu","ecosystem":"cargo","requirements":"1.0.18","direct":false,"kind":"runtime","optional":false},{"id":18609013292,"package_name":"serde","ecosystem":"cargo","requirements":"1.0.203","direct":false,"kind":"runtime","optional":false},{"id":18609013293,"package_name":"serde_derive","ecosystem":"cargo","requirements":"1.0.203","direct":false,"kind":"runtime","optional":false},{"id":18609013294,"package_name":"simplelog","ecosystem":"cargo","requirements":"0.12.2","direct":false,"kind":"runtime","optional":false},{"id":18609013295,"package_name":"strsim","ecosystem":"cargo","requirements":"0.11.1","direct":false,"kind":"runtime","optional":false},{"id":18609013296,"package_name":"syn","ecosystem":"cargo","requirements":"2.0.66","direct":false,"kind":"runtime","optional":false},{"id":18609013297,"package_name":"termcolor","ecosystem":"cargo","requirements":"1.4.1","direct":false,"kind":"runtime","optional":false},{"id":18609013298,"package_name":"time","ecosystem":"cargo","requirements":"0.3.36","direct":false,"kind":"runtime","optional":false},{"id":18609013299,"package_name":"time-core","ecosystem":"cargo","requirements":"0.1.2","direct":false,"kind":"runtime","optional":false},{"id":18609013300,"package_name":"time-macros","ecosystem":"cargo","requirements":"0.2.18","direct":false,"kind":"runtime","optional":false},{"id":18609013301,"package_name":"unicode-ident","ecosystem":"cargo","requirements":"1.0.12","direct":false,"kind":"runtime","optional":false},{"id":18609013302,"package_name":"utf8parse","ecosystem":"cargo","requirements":"0.2.2","direct":false,"kind":"runtime","optional":false},{"id":18609013303,"package_name":"winapi-util","ecosystem":"cargo","requirements":"0.1.8","direct":false,"kind":"runtime","optional":false},{"id":18609013304,"package_name":"windows-sys","ecosystem":"cargo","requirements":"0.52.0","direct":false,"kind":"runtime","optional":false},{"id":18609013305,"package_name":"windows-targets","ecosystem":"cargo","requirements":"0.52.5","direct":false,"kind":"runtime","optional":false},{"id":18609013306,"package_name":"windows_aarch64_gnullvm","ecosystem":"cargo","requirements":"0.52.5","direct":false,"kind":"runtime","optional":false},{"id":18609013307,"package_name":"windows_aarch64_msvc","ecosystem":"cargo","requirements":"0.52.5","direct":false,"kind":"runtime","optional":false},{"id":18609013308,"package_name":"windows_i686_gnu","ecosystem":"cargo","requirements":"0.52.5","direct":false,"kind":"runtime","optional":false},{"id":18609013309,"package_name":"windows_i686_gnullvm","ecosystem":"cargo","requirements":"0.52.5","direct":false,"kind":"runtime","optional":false},{"id":18609013310,"package_name":"windows_i686_msvc","ecosystem":"cargo","requirements":"0.52.5","direct":false,"kind":"runtime","optional":false},{"id":18609013311,"package_name":"windows_x86_64_gnu","ecosystem":"cargo","requirements":"0.52.5","direct":false,"kind":"runtime","optional":false},{"id":18609013312,"package_name":"windows_x86_64_gnullvm","ecosystem":"cargo","requirements":"0.52.5","direct":false,"kind":"runtime","optional":false},{"id":18609013313,"package_name":"windows_x86_64_msvc","ecosystem":"cargo","requirements":"0.52.5","direct":false,"kind":"runtime","optional":false}]},{"ecosystem":"cargo","filepath":"Cargo.toml","sha":null,"kind":"manifest","created_at":"2024-06-14T12:09:17.679Z","updated_at":"2024-06-14T12:09:17.679Z","repository_link":"https://github.com/PathoGenOmics-Lab/tcfinder/blob/main/Cargo.toml","dependencies":[]}],"score":null,"created_at":"2025-09-04T15:51:30.704Z","updated_at":"2025-10-07T08:21:42.859Z","avatar_url":"https://github.com/PathoGenOmics-Lab.png","language":"Rust","category":null,"sub_category":null,"monthly_downloads":0,"funding_links":[],"readme_doi_urls":["https://doi.org/10.1093/ve/veaf015"],"works":{},"citation_counts":{},"total_citations":0,"keywords_from_contributors":[],"project_url":"https://science.ecosyste.ms/api/v1/projects/55004","html_url":"https://science.ecosyste.ms/projects/55004","bibtex_url":"https://science.ecosyste.ms/projects/55004/export.bibtex","apalike_url":"https://science.ecosyste.ms/projects/55004/export.apalike"}