{"id":32111235,"url":"https://github.com/reactome/reactomegsa","last_synced_at":"2025-10-20T14:20:49.987Z","repository":{"id":74279022,"uuid":"194657526","full_name":"reactome/ReactomeGSA","owner":"reactome","description":"R client for the REACTOME Analysis Service for comparative multi-omics gene set analysis","archived":false,"fork":false,"pushed_at":"2024-11-27T19:03:33.000Z","size":1048,"stargazers_count":29,"open_issues_count":23,"forks_count":5,"subscribers_count":2,"default_branch":"master","last_synced_at":"2025-10-14T01:51:37.410Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"language":"R","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/reactome.png","metadata":{"files":{"readme":"README.md","changelog":"NEWS","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}},"created_at":"2019-07-01T11:12:19.000Z","updated_at":"2025-10-10T03:22:06.000Z","dependencies_parsed_at":null,"dependency_job_id":"4dce7058-f3e8-4d69-8073-bee24da6a324","html_url":"https://github.com/reactome/ReactomeGSA","commit_stats":{"total_commits":68,"total_committers":4,"mean_commits":17.0,"dds":"0.23529411764705888","last_synced_commit":"044eb7b1352c6c6893839258d02e6238579cf67d"},"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/reactome/ReactomeGSA","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/reactome%2FReactomeGSA","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/reactome%2FReactomeGSA/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/reactome%2FReactomeGSA/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/reactome%2FReactomeGSA/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/reactome","download_url":"https://codeload.github.com/reactome/ReactomeGSA/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/reactome%2FReactomeGSA/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":280104460,"owners_count":26272755,"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":"2025-10-20T02:00:06.978Z","response_time":62,"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"}},"keywords":[],"created_at":"2025-10-20T14:20:46.049Z","updated_at":"2025-10-20T14:20:49.979Z","avatar_url":"https://github.com/reactome.png","language":"R","funding_links":[],"categories":[],"sub_categories":[],"readme":"# ReactomeGSA\n\nThe `ReactomeGSA` package is an R client to the `Reactome Analysis System`. This new analysis system supports **multi-species, multi-omics, comparative pathway analyses**.\n\n## Getting Help\n\n  * For any questions surrounding the use of ReactomeGSA, please simply post it in our [Q\u0026A Section](https://github.com/reactome/ReactomeGSA/discussions)\n  * Should you find a bug in our tool(s) we'd be very grateful if you could report it by posting a [new GitHub Issue](https://github.com/reactome/ReactomeGSA/issues/new)\n  * If you encounter any other issues, don't hesitate to contact us at help [at] reactome [dot] org\n\n## Documnetation\n\nThe complete usage of the package is described in the [main vignette](https://bioconductor.org/packages/release/bioc/vignettes/ReactomeGSA/inst/doc/using-reactomegsa.html).\n\nIf you are interested in processing single-cell RNA-seq data using ReactomeGSA, checkout [this vignette](https://bioconductor.org/packages/release/bioc/vignettes/ReactomeGSA/inst/doc/using-reactomegsa.html)\n\n## Installation\n\n### Bioconductor\n\nThe `ReactomeGSA` package is part of Bioconductor since version 3.10. You can find detailed information on the latest stable version on [ReactomeGSA's Bioconductor page](https://doi.org/doi:10.18129/B9.bioc.ReactomeGSA).\n\nTo install the latest version from Bioconductor use\n\n```r\nif (!requireNamespace(\"BiocManager\", quietly = TRUE))\n    install.packages(\"BiocManager\")\n\nBiocManager::install(\"ReactomeGSA\")\n```\n\n### Latest Version\n\nBioconductor is updated every 6 months. You can still get the latest version of the ReactomeGSA package directly from GitHub:\n\n```r\n# install devtools if needed\nif (!require(devtools)) {\n  install.packages(\"devtools\")\n}\n\n# install the ReactomeGSA package\nif (!require(ReactomeGSA)) {\n  install_github(\"reactome/ReactomeGSA\")\n}\n```\n\n## Citation\n\nIf you used ReactomeGSA in your research, we would be grateful if you could cite the following manuscript:\n\nGriss *et al.*, ReactomeGSA - Efficient Multi-Omics Comparative Pathway Analysis (2020), MCP 19 (12) P2115-2125, DOI: [10.1074/mcp.TIR120.002155](https://doi.org/10.1074/mcp.TIR120.002155)\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Freactome%2Freactomegsa","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Freactome%2Freactomegsa","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Freactome%2Freactomegsa/lists"}