{"id":2200,"name":"graphsim","description":"graphsim: An R package for simulating gene expression data from graph structures of biological pathways - Published in JOSS (2020)","url":"https://github.com/tomkellygenetics/graphsim","last_synced_at":"2025-09-04T16:43:51.039Z","repository":{"id":56934746,"uuid":"67395230","full_name":"TomKellyGenetics/graphsim","owner":"TomKellyGenetics","description":"R package: Simulate Expression data from igraph network using mvtnorm (CRAN; JOSS)","archived":false,"fork":false,"pushed_at":"2025-05-12T21:59:19.000Z","size":37577,"stargazers_count":24,"open_issues_count":0,"forks_count":7,"subscribers_count":4,"default_branch":"master","last_synced_at":"2025-08-28T00:58:31.902Z","etag":null,"topics":["benchmarking","gene-expression","gene-regulatory-networks","genetics","genomic-data-analysis","genomics","graph-algorithms","igraph-networks","joss","ngs-analysis","package","r-stats","simulated-data","simulation-modeling"],"latest_commit_sha":null,"homepage":"","language":"HTML","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/TomKellyGenetics.png","metadata":{"files":{"readme":"README.md","changelog":"NEWS.md","contributing":"CONTRIBUTING.md","funding":null,"license":"LICENSE","code_of_conduct":"CODE_OF_CONDUCT.md","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":"2016-09-05T06:49:01.000Z","updated_at":"2025-05-12T21:59:04.000Z","dependencies_parsed_at":"2025-05-12T22:32:10.710Z","dependency_job_id":"c7520d01-bf7a-44ef-82a7-08a265e79184","html_url":"https://github.com/TomKellyGenetics/graphsim","commit_stats":null,"previous_names":[],"tags_count":11,"template":false,"template_full_name":null,"purl":"pkg:github/TomKellyGenetics/graphsim","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/TomKellyGenetics","download_url":"https://codeload.github.com/TomKellyGenetics/graphsim/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":273605066,"owners_count":25135678,"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":"2025-09-04T02:00:08.968Z","response_time":61,"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":"TomKellyGenetics","name":"Tom Kelly","uuid":"5493325","kind":"user","description":"Bioinformatician. PhD 2014-2017: @mikblacklab Otago Uni. Postdoc 2018-2021: @minoda-lab RIKEN. The @carpentries.\r\n\r\nGenomics | Health | Math | Stats | AWS Dev","email":"","website":"https://orcid.org/0000-0003-3904-6690","location":"Akiruno, Tokyo, Japan","twitter":"tomkxy","company":"RIKEN IMS; H.U. Group @hugp-ri","icon_url":"https://avatars.githubusercontent.com/u/5493325?u=1d5e257863422341b84a3b43fd8cb8e4d9570277\u0026v=4","repositories_count":138,"last_synced_at":"2024-03-19T21:44:57.474Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/TomKellyGenetics","funding_links":[],"total_stars":106,"followers":null,"following":null,"created_at":"2022-11-09T03:16:36.616Z","updated_at":"2024-03-19T21:45:05.215Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/TomKellyGenetics","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/TomKellyGenetics/repositories"},"packages":[{"id":430542,"name":"graphsim","ecosystem":"cran","description":"Simulate Expression Data from 'igraph' Networks","homepage":"https://github.com/TomKellyGenetics/graphsim/","licenses":"GPL-3","normalized_licenses":["GPL-3.0"],"repository_url":"https://github.com/TomKellyGenetics/graphsim","keywords_array":[],"namespace":null,"versions_count":6,"first_release_published_at":"2020-03-16T15:10:00.000Z","latest_release_published_at":"2025-05-12T00:00:00.000Z","latest_release_number":"1.0.4","last_synced_at":"2025-09-03T21:05:37.257Z","created_at":"2022-04-06T21:11:14.298Z","updated_at":"2025-09-03T21:05:37.257Z","registry_url":"https://cran.r-project.org/package=graphsim","install_command":null,"documentation_url":"http://cran.r-project.org/web/packages/graphsim/graphsim.pdf","metadata":{},"repo_metadata":{"uuid":"67395230","full_name":"TomKellyGenetics/graphsim","owner":"TomKellyGenetics","description":"R package: Simulate Expression data from igraph network using mvtnorm (CRAN; JOSS)","archived":false,"fork":false,"pushed_at":"2022-09-12T06:10:25.000Z","size":37570,"stargazers_count":21,"open_issues_count":0,"forks_count":7,"subscribers_count":5,"default_branch":"master","last_synced_at":"2023-12-15T12:04:24.794Z","etag":null,"topics":["benchmarking","gene-expression","gene-regulatory-networks","genetics","genomic-data-analysis","genomics","graph-algorithms","igraph-networks","joss","ngs-analysis","package","r-stats","simulated-data","simulation-modeling"],"latest_commit_sha":null,"homepage":"","language":"R","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/TomKellyGenetics.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":"CONTRIBUTING.md","funding":null,"license":"LICENSE","code_of_conduct":"CODE_OF_CONDUCT.md","threat_model":null,"audit":null,"citation":"CITATION.cff","codeowners":null,"security":null,"support":null}},"created_at":"2016-09-05T06:49:01.000Z","updated_at":"2023-05-31T05:37:22.000Z","dependencies_parsed_at":"2022-08-21T00:40:30.864Z","dependency_job_id":null,"html_url":"https://github.com/TomKellyGenetics/graphsim","commit_stats":null,"previous_names":[],"tags_count":10,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/TomKellyGenetics","download_url":"https://codeload.github.com/TomKellyGenetics/graphsim/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":176461608,"owners_count":10404101,"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","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_record":{"login":"TomKellyGenetics","name":"Tom Kelly","uuid":"5493325","kind":"user","description":"Bioinformatician. PhD 2014-2017: @mikblacklab (Otago Uni). Postdoc 2018-2021: @minoda-lab (RIKEN). The @carpentries.\r\n\r\nGenomics | Healthcare | Math | Stat","email":"","website":"https://orcid.org/0000-0003-3904-6690","location":"Akiruno, Tokyo, Japan","twitter":"tomkxy","company":"RIKEN IMS; H.U. Group @hugp-ri","icon_url":"https://avatars.githubusercontent.com/u/5493325?u=1d5e257863422341b84a3b43fd8cb8e4d9570277\u0026v=4","repositories_count":17,"last_synced_at":"2023-02-25T14:22:10.604Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/TomKellyGenetics","created_at":"2022-11-09T03:16:36.616Z","updated_at":"2023-02-25T14:22:10.608Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/TomKellyGenetics","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/TomKellyGenetics/repositories"},"tags":[{"name":"1.0.3","sha":"a562ca85a54a85d492b3a562dbf828dbfb4374d2","kind":"commit","published_at":"2022-09-12T06:07:47.000Z","download_url":"https://codeload.github.com/TomKellyGenetics/graphsim/tar.gz/1.0.3","html_url":"https://github.com/TomKellyGenetics/graphsim/releases/tag/1.0.3","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/tags/1.0.3","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/tags/1.0.3/manifests"},{"name":"v1.0.2","sha":"2f0e068413dc6cc85d94363d3ff29a614c2eabe6","kind":"commit","published_at":"2021-07-29T01:09:31.000Z","download_url":"https://codeload.github.com/TomKellyGenetics/graphsim/tar.gz/v1.0.2","html_url":"https://github.com/TomKellyGenetics/graphsim/releases/tag/v1.0.2","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/tags/v1.0.2","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/tags/v1.0.2/manifests"},{"name":"v1.0.1","sha":"ec5f1c9bc4ef953802a20868812cb14f3a863bba","kind":"commit","published_at":"2020-07-17T09:50:29.000Z","download_url":"https://codeload.github.com/TomKellyGenetics/graphsim/tar.gz/v1.0.1","html_url":"https://github.com/TomKellyGenetics/graphsim/releases/tag/v1.0.1","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/tags/v1.0.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/tags/v1.0.1/manifests"},{"name":"1.0.0-joss-accepted","sha":"b0fb64ad19c42f01f23dd087cacfdf9891a6ec3b","kind":"commit","published_at":"2020-07-09T00:17:16.000Z","download_url":"https://codeload.github.com/TomKellyGenetics/graphsim/tar.gz/1.0.0-joss-accepted","html_url":"https://github.com/TomKellyGenetics/graphsim/releases/tag/1.0.0-joss-accepted","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/tags/1.0.0-joss-accepted","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/tags/1.0.0-joss-accepted/manifests"},{"name":"1.0.0-joss","sha":"7b6077b43797e877cf7f7246e69e9f038ed0035d","kind":"commit","published_at":"2020-07-06T07:31:37.000Z","download_url":"https://codeload.github.com/TomKellyGenetics/graphsim/tar.gz/1.0.0-joss","html_url":"https://github.com/TomKellyGenetics/graphsim/releases/tag/1.0.0-joss","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/tags/1.0.0-joss","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/tags/1.0.0-joss/manifests"},{"name":"v1.0.0","sha":"a7f196536411ccc4b52284b98060a579881068aa","kind":"commit","published_at":"2020-07-01T14:26:08.000Z","download_url":"https://codeload.github.com/TomKellyGenetics/graphsim/tar.gz/v1.0.0","html_url":"https://github.com/TomKellyGenetics/graphsim/releases/tag/v1.0.0","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/tags/v1.0.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/tags/v1.0.0/manifests"},{"name":"0.1.2","sha":"f56f47e487d08b281ed92157368e8fcfef253094","kind":"commit","published_at":"2020-03-10T07:20:30.000Z","download_url":"https://codeload.github.com/TomKellyGenetics/graphsim/tar.gz/0.1.2","html_url":"https://github.com/TomKellyGenetics/graphsim/releases/tag/0.1.2","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/tags/0.1.2","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/tags/0.1.2/manifests"},{"name":"0.1.1","sha":"550110282f250599f228480cf724e6107eef1a06","kind":"commit","published_at":"2019-07-28T08:27:51.000Z","download_url":"https://codeload.github.com/TomKellyGenetics/graphsim/tar.gz/0.1.1","html_url":"https://github.com/TomKellyGenetics/graphsim/releases/tag/0.1.1","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/tags/0.1.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/tags/0.1.1/manifests"},{"name":"0.1.0","sha":"db1be7c2bebc1e26680b72f0b8bb6c1e0dac4b28","kind":"commit","published_at":"2018-06-19T04:57:49.000Z","download_url":"https://codeload.github.com/TomKellyGenetics/graphsim/tar.gz/0.1.0","html_url":"https://github.com/TomKellyGenetics/graphsim/releases/tag/0.1.0","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/tags/0.1.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/tags/0.1.0/manifests"},{"name":"v0.1","sha":"db1be7c2bebc1e26680b72f0b8bb6c1e0dac4b28","kind":"commit","published_at":"2018-06-19T04:57:49.000Z","download_url":"https://codeload.github.com/TomKellyGenetics/graphsim/tar.gz/v0.1","html_url":"https://github.com/TomKellyGenetics/graphsim/releases/tag/v0.1","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/tags/v0.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/tags/v0.1/manifests"}]},"repo_metadata_updated_at":"2023-12-15T12:04:44.836Z","dependent_packages_count":1,"downloads":445,"downloads_period":"last-month","dependent_repos_count":2,"rankings":{"downloads":21.745293466223696,"dependent_repos_count":19.15374390784227,"dependent_packages_count":18.10810810810811,"stargazers_count":11.499446290143965,"forks_count":8.6929552503323,"docker_downloads_count":25.972529906956137,"average":17.528679488267745},"purl":"pkg:cran/graphsim","advisories":[],"docker_usage_url":"https://docker.ecosyste.ms/usage/cran/graphsim","docker_dependents_count":4,"docker_downloads_count":21642,"usage_url":"https://repos.ecosyste.ms/usage/cran/graphsim","dependent_repositories_url":"https://repos.ecosyste.ms/api/v1/usage/cran/graphsim/dependencies","status":null,"funding_links":[],"critical":null,"issue_metadata":{"last_synced_at":"2023-12-15T12:04:44.217Z","issues_count":11,"pull_requests_count":3,"avg_time_to_close_issue":6298322.454545454,"avg_time_to_close_pull_request":7789778.333333333,"issues_closed_count":11,"pull_requests_closed_count":3,"pull_request_authors_count":3,"issue_authors_count":3,"avg_comments_per_issue":4.2727272727272725,"avg_comments_per_pull_request":1.6666666666666667,"merged_pull_requests_count":2,"bot_issues_count":0,"bot_pull_requests_count":0,"past_year_issues_count":0,"past_year_pull_requests_count":0,"past_year_avg_time_to_close_issue":null,"past_year_avg_time_to_close_pull_request":null,"past_year_issues_closed_count":0,"past_year_pull_requests_closed_count":0,"past_year_pull_request_authors_count":0,"past_year_issue_authors_count":0,"past_year_avg_comments_per_issue":null,"past_year_avg_comments_per_pull_request":null,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":0,"past_year_merged_pull_requests_count":0,"issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/issues"},"versions_url":"https://packages.ecosyste.ms/api/v1/registries/cran.r-project.org/packages/graphsim/versions","version_numbers_url":"https://packages.ecosyste.ms/api/v1/registries/cran.r-project.org/packages/graphsim/version_numbers","dependent_packages_url":"https://packages.ecosyste.ms/api/v1/registries/cran.r-project.org/packages/graphsim/dependent_packages","related_packages_url":"https://packages.ecosyste.ms/api/v1/registries/cran.r-project.org/packages/graphsim/related_packages","maintainers":[{"uuid":"tomkellygenetics@gmail.com","login":null,"name":"S. Thomas Kelly","email":"tomkellygenetics@gmail.com","url":null,"packages_count":4,"html_url":null,"role":null,"created_at":"2022-11-14T17:18:23.156Z","updated_at":"2022-11-14T17:18:23.156Z","packages_url":"https://packages.ecosyste.ms/api/v1/registries/cran.r-project.org/maintainers/tomkellygenetics@gmail.com/packages"}],"registry":{"name":"cran.r-project.org","url":"https://cran.r-project.org","ecosystem":"cran","default":true,"packages_count":26169,"maintainers_count":14292,"namespaces_count":0,"keywords_count":8317,"github":"r-project-org","metadata":{"funded_packages_count":539},"icon_url":"https://github.com/r-project-org.png","created_at":"2022-04-06T16:32:25.637Z","updated_at":"2025-09-04T07:00:40.033Z","packages_url":"https://packages.ecosyste.ms/api/v1/registries/cran.r-project.org/packages","maintainers_url":"https://packages.ecosyste.ms/api/v1/registries/cran.r-project.org/maintainers","namespaces_url":"https://packages.ecosyste.ms/api/v1/registries/cran.r-project.org/namespaces"}}],"commits":{"id":722288,"full_name":"TomKellyGenetics/graphsim","default_branch":"master","committers":[{"name":"TomKellyGenetics","email":"tomkellygenetics@gmail.com","login":"TomKellyGenetics","count":407},{"name":"=","email":"=","login":null,"count":13},{"name":"Robrecht Cannoodt","email":"rcannood@gmail.com","login":"rcannood","count":2}],"total_commits":422,"total_committers":3,"total_bot_commits":0,"total_bot_committers":0,"mean_commits":140.66666666666666,"dds":0.03554502369668244,"past_year_committers":[{"name":"S. Thomas Kelly","email":"tom.kelly@agresearch.co.nz","login":"TomKellyGenetics","count":2}],"past_year_total_commits":2,"past_year_total_committers":1,"past_year_total_bot_commits":0,"past_year_total_bot_committers":0,"past_year_mean_commits":2.0,"past_year_dds":0.0,"last_synced_at":"2025-08-07T07:01:52.167Z","last_synced_commit":"cb201c75c8f9c56bd3f3250ddd5afc2174de3fff","created_at":"2023-03-09T13:06:20.680Z","updated_at":"2025-08-07T07:01:52.167Z","commits_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/commits","host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-08-28T00:00:20.468Z","repositories_count":5479765,"commits_count":853309695,"contributors_count":31095220,"owners_count":906558,"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":"TomKellyGenetics/graphsim","html_url":"https://github.com/TomKellyGenetics/graphsim","last_synced_at":"2025-08-31T19:41:01.498Z","status":"error","issues_count":11,"pull_requests_count":3,"avg_time_to_close_issue":6298322.454545454,"avg_time_to_close_pull_request":7789778.333333333,"issues_closed_count":11,"pull_requests_closed_count":3,"pull_request_authors_count":3,"issue_authors_count":3,"avg_comments_per_issue":4.2727272727272725,"avg_comments_per_pull_request":1.6666666666666667,"merged_pull_requests_count":2,"bot_issues_count":0,"bot_pull_requests_count":0,"past_year_issues_count":0,"past_year_pull_requests_count":0,"past_year_avg_time_to_close_issue":null,"past_year_avg_time_to_close_pull_request":null,"past_year_issues_closed_count":0,"past_year_pull_requests_closed_count":0,"past_year_pull_request_authors_count":0,"past_year_issue_authors_count":0,"past_year_avg_comments_per_issue":null,"past_year_avg_comments_per_pull_request":null,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":0,"past_year_merged_pull_requests_count":0,"created_at":"2023-05-10T22:34:25.289Z","updated_at":"2025-08-31T19:41:01.498Z","repository_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim","issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/TomKellyGenetics%2Fgraphsim/issues","issue_labels_count":{"wip":2,"enhancement":2,"cran":1},"pull_request_labels_count":{},"issue_author_associations_count":{"NONE":7,"OWNER":2,"CONTRIBUTOR":2},"pull_request_author_associations_count":{"OWNER":1,"NONE":1,"CONTRIBUTOR":1},"issue_authors":{"corybrunson":7,"rcannood":2,"TomKellyGenetics":2},"pull_request_authors":{"rcannood":1,"kozo2":1,"TomKellyGenetics":1},"host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-01T00:00:07.725Z","repositories_count":9960864,"issues_count":29599243,"pull_requests_count":86024997,"authors_count":9558114,"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":[{"login":"TomKellyGenetics","count":3,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/TomKellyGenetics"}],"active_maintainers":[]},"events":{"total":{"ReleaseEvent":1,"WatchEvent":1,"PushEvent":2,"CreateEvent":1},"last_year":{"ReleaseEvent":1,"WatchEvent":1,"PushEvent":2,"CreateEvent":1}},"keywords":["benchmarking","gene-expression","gene-regulatory-networks","genetics","genomic-data-analysis","genomics","graph-algorithms","igraph-networks","joss","ngs-analysis","package","r-stats","simulated-data","simulation-modeling"],"dependencies":[{"ecosystem":"cran","filepath":"DESCRIPTION","sha":null,"kind":"manifest","created_at":"2022-08-21T00:40:30.764Z","updated_at":"2022-08-21T00:40:30.764Z","repository_link":"https://github.com/TomKellyGenetics/graphsim/blob/master/DESCRIPTION","dependencies":[{"id":2197989538,"package_name":"R","ecosystem":"cran","requirements":"\u003e= 2.10","direct":true,"kind":"depends","optional":false},{"id":2197989539,"package_name":"utils","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":2197989540,"package_name":"gplots","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":2197989541,"package_name":"igraph","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":2197989542,"package_name":"mvtnorm","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":2197989543,"package_name":"Matrix","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":2197989544,"package_name":"matrixcalc","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":2197989545,"package_name":"graphics","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":2197989546,"package_name":"devtools","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":2197989547,"package_name":"knitr","ecosystem":"cran","requirements":"\u003e= 1.5","direct":true,"kind":"suggests","optional":false},{"id":2197989548,"package_name":"markdown","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":2197989549,"package_name":"prettydoc","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":2197989550,"package_name":"R.rsp","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":2197989551,"package_name":"rmarkdown","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":2197989552,"package_name":"testthat","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":2197989553,"package_name":"scales","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":2197989554,"package_name":"vdiffr","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false}]}],"score":14.279772736580897,"created_at":"2025-09-04T09:17:58.175Z","updated_at":"2025-10-07T08:04:38.017Z","avatar_url":"https://github.com/TomKellyGenetics.png","language":"HTML","category":"Scientific Software","sub_category":"Peer-reviewed","monthly_downloads":445,"funding_links":[],"readme_doi_urls":["https://doi.org/10.1101/2020.03.02.972471","https://doi.org/10.21105/joss.02161"],"works":{},"citation_counts":{},"total_citations":0,"keywords_from_contributors":[],"project_url":"https://science.ecosyste.ms/api/v1/projects/2200","html_url":"https://science.ecosyste.ms/projects/2200","bibtex_url":"https://science.ecosyste.ms/projects/2200/export.bibtex","apalike_url":"https://science.ecosyste.ms/projects/2200/export.apalike"}