{"id":66377,"name":"APAlyzer","description":"APAlyzer is a toolkit for bioinformatic analysis of alternative polyadenylation (APA) events using RNA sequencing data. Our main approach is the comparison of sequencing reads in regions demarcated by high-quality polyadenylation sites (PASs) annotated in the PolyA_DB database (https://exon.apps.wistar.org/PolyA_DB/v3/). The current version (v3.0) uses RNA-seq data to examine APA events in 3’ untranslated regions (3’UTRs) and in introns. The coding regions are used for gene expression calculation.","url":"https://github.com/rjwangbioinfo/apalyzer","last_synced_at":"2025-09-08T13:38:28.219Z","repository":{"id":41934452,"uuid":"196670307","full_name":"RJWANGbioinfo/APAlyzer","owner":"RJWANGbioinfo","description":"APAlyzer is a toolkit for bioinformatic analysis of alternative polyadenylation (APA) events using RNA sequencing data. Our main approach is the comparison of sequencing reads in regions demarcated by high-quality polyadenylation sites (PASs) annotated in the PolyA_DB database (https://exon.apps.wistar.org/PolyA_DB/v3/). The current version (v3.0) uses RNA-seq data to examine APA events in 3’ untranslated regions (3’UTRs) and in introns. The coding regions are used for gene expression calculation.","archived":false,"fork":false,"pushed_at":"2022-07-04T19:55:45.000Z","size":19606,"stargazers_count":4,"open_issues_count":3,"forks_count":4,"subscribers_count":1,"default_branch":"master","last_synced_at":"2023-11-20T12:05:40.049Z","etag":null,"topics":["ative-polyadenylation","bioinformatics-tool","rna-seq"],"latest_commit_sha":null,"homepage":"https://bioconductor.org/packages/release/bioc/html/APAlyzer.html","language":"R","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"lgpl-3.0","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/RJWANGbioinfo.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}},"created_at":"2019-07-13T02:44:39.000Z","updated_at":"2023-03-15T09:37:16.000Z","dependencies_parsed_at":"2022-08-30T02:50:49.259Z","dependency_job_id":null,"html_url":"https://github.com/RJWANGbioinfo/APAlyzer","commit_stats":null,"previous_names":[],"tags_count":18,"template":null,"template_full_name":null,"purl":"pkg:github/RJWANGbioinfo/APAlyzer","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/RJWANGbioinfo","download_url":"https://codeload.github.com/RJWANGbioinfo/APAlyzer/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":274194958,"owners_count":25239146,"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":"2025-09-08T02:00:09.813Z","response_time":121,"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":"RJWANGbioinfo","name":"Ruijia Wang","uuid":"51307984","kind":"user","description":"","email":"","website":"rjwangbioinfo.net","location":"MA","twitter":null,"company":"Vor Biopharma","icon_url":"https://avatars.githubusercontent.com/u/51307984?u=3874b7cb9bae6a2ffb80c0b76dd3b78ad41f4fd2\u0026v=4","repositories_count":2,"last_synced_at":"2023-03-11T08:25:52.934Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/RJWANGbioinfo","funding_links":[],"total_stars":null,"followers":null,"following":null,"created_at":"2023-03-11T08:25:52.943Z","updated_at":"2023-03-11T08:25:52.943Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/RJWANGbioinfo","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/RJWANGbioinfo/repositories"},"packages":[{"id":8418685,"name":"APAlyzer","ecosystem":"bioconductor","description":"A toolkit for APA analysis using RNA-seq data","homepage":"https://github.com/RJWANGbioinfo/APAlyzer/ ","licenses":"LGPL-3","normalized_licenses":["LGPL-3.0"],"repository_url":"https://github.com/RJWANGbioinfo/APAlyzer","keywords_array":["Annotation","DataImport","DifferentialExpression","GeneExpression","GeneRegulation","RNASeq","Sequencing","Software"],"namespace":null,"versions_count":5,"first_release_published_at":"2023-10-12T14:11:47.626Z","latest_release_published_at":"2025-05-15T07:49:39.794Z","latest_release_number":"1.22.0","last_synced_at":"2025-08-28T20:45:13.223Z","created_at":"2023-10-12T14:11:47.455Z","updated_at":"2025-08-28T20:45:13.223Z","registry_url":"https://bioconductor.org/packages/APAlyzer","install_command":null,"documentation_url":"https://bioconductor.org/packages/release/bioc/vignettes/APAlyzer/inst/doc/APAlyzer.pdf","metadata":{},"repo_metadata":{"uuid":"196670307","full_name":"RJWANGbioinfo/APAlyzer","owner":"RJWANGbioinfo","description":"APAlyzer is a toolkit for bioinformatic analysis of alternative polyadenylation (APA) events using RNA sequencing data. Our main approach is the comparison of sequencing reads in regions demarcated by high-quality polyadenylation sites (PASs) annotated in the PolyA_DB database (https://exon.apps.wistar.org/PolyA_DB/v3/). The current version (v3.0) uses RNA-seq data to examine APA events in 3’ untranslated regions (3’UTRs) and in introns. The coding regions are used for gene expression calculation.","archived":false,"fork":false,"pushed_at":"2022-07-04T19:55:45.000Z","size":19606,"stargazers_count":4,"open_issues_count":3,"forks_count":4,"subscribers_count":1,"default_branch":"master","last_synced_at":"2023-10-25T13:03:09.712Z","etag":null,"topics":["ative-polyadenylation","bioinformatics-tool","rna-seq"],"latest_commit_sha":null,"homepage":"https://bioconductor.org/packages/release/bioc/html/APAlyzer.html","language":"R","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"lgpl-3.0","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/RJWANGbioinfo.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}},"created_at":"2019-07-13T02:44:39.000Z","updated_at":"2023-03-15T09:37:16.000Z","dependencies_parsed_at":"2022-08-30T02:50:49.259Z","dependency_job_id":null,"html_url":"https://github.com/RJWANGbioinfo/APAlyzer","commit_stats":null,"previous_names":[],"tags_count":18,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/RJWANGbioinfo","download_url":"https://codeload.github.com/RJWANGbioinfo/APAlyzer/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":172206172,"owners_count":9795752,"icon_url":"https://github.com/github.png","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":"RJWANGbioinfo","name":"Ruijia Wang","uuid":"51307984","kind":"user","description":"","email":"","website":"rjwangbioinfo.net","location":"MA","twitter":null,"company":"Vor Biopharma","icon_url":"https://avatars.githubusercontent.com/u/51307984?u=3874b7cb9bae6a2ffb80c0b76dd3b78ad41f4fd2\u0026v=4","repositories_count":2,"last_synced_at":"2023-03-11T08:25:52.934Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/RJWANGbioinfo","created_at":"2023-03-11T08:25:52.943Z","updated_at":"2023-03-11T08:25:52.943Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/RJWANGbioinfo","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/RJWANGbioinfo/repositories"},"tags":[{"name":"release-1.9.4","sha":"4ad181a9862da367486a3f7c8b4713b8910a6d8a","kind":"commit","published_at":"2022-03-01T04:56:33.000Z","download_url":"https://codeload.github.com/RJWANGbioinfo/APAlyzer/tar.gz/release-1.9.4","html_url":"https://github.com/RJWANGbioinfo/APAlyzer/releases/tag/release-1.9.4","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.9.4","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.9.4/manifests"},{"name":"release-1.9.3","sha":"171d2c75bcfc5b67f10ba4b081da4cccb70ef0de","kind":"commit","published_at":"2022-02-28T03:51:42.000Z","download_url":"https://codeload.github.com/RJWANGbioinfo/APAlyzer/tar.gz/release-1.9.3","html_url":"https://github.com/RJWANGbioinfo/APAlyzer/releases/tag/release-1.9.3","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.9.3","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.9.3/manifests"},{"name":"release-1.9.2","sha":"225591678ce500f7315d2dd4b4afb6b1e201f328","kind":"commit","published_at":"2022-01-03T04:50:55.000Z","download_url":"https://codeload.github.com/RJWANGbioinfo/APAlyzer/tar.gz/release-1.9.2","html_url":"https://github.com/RJWANGbioinfo/APAlyzer/releases/tag/release-1.9.2","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.9.2","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.9.2/manifests"},{"name":"release-1.9.1","sha":"2107de564096ef13d74ab6d70d507bb9b6880af4","kind":"commit","published_at":"2021-11-28T09:10:23.000Z","download_url":"https://codeload.github.com/RJWANGbioinfo/APAlyzer/tar.gz/release-1.9.1","html_url":"https://github.com/RJWANGbioinfo/APAlyzer/releases/tag/release-1.9.1","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.9.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.9.1/manifests"},{"name":"release-2.0.1","sha":"eecd6c3c5d61c92bb7dace7c19d6a33fa52afd29","kind":"commit","published_at":"2021-11-28T07:58:20.000Z","download_url":"https://codeload.github.com/RJWANGbioinfo/APAlyzer/tar.gz/release-2.0.1","html_url":"https://github.com/RJWANGbioinfo/APAlyzer/releases/tag/release-2.0.1","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-2.0.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-2.0.1/manifests"},{"name":"release-1.7.3","sha":"f77faaa18b555a053d0a07cff797a5b2c6a07d38","kind":"commit","published_at":"2021-07-31T15:50:33.000Z","download_url":"https://codeload.github.com/RJWANGbioinfo/APAlyzer/tar.gz/release-1.7.3","html_url":"https://github.com/RJWANGbioinfo/APAlyzer/releases/tag/release-1.7.3","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.7.3","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.7.3/manifests"},{"name":"release-1.7.2","sha":"72a66db8d0b50b6541517f4483893252ec1dc882","kind":"commit","published_at":"2021-07-31T04:16:39.000Z","download_url":"https://codeload.github.com/RJWANGbioinfo/APAlyzer/tar.gz/release-1.7.2","html_url":"https://github.com/RJWANGbioinfo/APAlyzer/releases/tag/release-1.7.2","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.7.2","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.7.2/manifests"},{"name":"release-1.7.1","sha":"0f9819b682812b1e0467de0eaa6396981f49392c","kind":"commit","published_at":"2021-07-10T02:41:00.000Z","download_url":"https://codeload.github.com/RJWANGbioinfo/APAlyzer/tar.gz/release-1.7.1","html_url":"https://github.com/RJWANGbioinfo/APAlyzer/releases/tag/release-1.7.1","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.7.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.7.1/manifests"},{"name":"release-1.5.5","sha":"6c2caf53987358efb42ed11c6b88094a735ece23","kind":"commit","published_at":"2021-02-12T16:35:28.000Z","download_url":"https://codeload.github.com/RJWANGbioinfo/APAlyzer/tar.gz/release-1.5.5","html_url":"https://github.com/RJWANGbioinfo/APAlyzer/releases/tag/release-1.5.5","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.5.5","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.5.5/manifests"},{"name":"release-1.5.4","sha":"0987edd7bf091c143a13f2c68471e4e258cb11ed","kind":"commit","published_at":"2021-01-10T06:40:34.000Z","download_url":"https://codeload.github.com/RJWANGbioinfo/APAlyzer/tar.gz/release-1.5.4","html_url":"https://github.com/RJWANGbioinfo/APAlyzer/releases/tag/release-1.5.4","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.5.4","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.5.4/manifests"},{"name":"1.5.2","sha":"995007c336a888a24ea3b3096a8617648a43379b","kind":"commit","published_at":"2020-12-23T15:40:12.000Z","download_url":"https://codeload.github.com/RJWANGbioinfo/APAlyzer/tar.gz/1.5.2","html_url":"https://github.com/RJWANGbioinfo/APAlyzer/releases/tag/1.5.2","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/1.5.2","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/1.5.2/manifests"},{"name":"release-1.3.3","sha":"db119645ee6cc8b38ffb6eaf07a110a1e5b80292","kind":"commit","published_at":"2020-07-21T02:58:05.000Z","download_url":"https://codeload.github.com/RJWANGbioinfo/APAlyzer/tar.gz/release-1.3.3","html_url":"https://github.com/RJWANGbioinfo/APAlyzer/releases/tag/release-1.3.3","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.3.3","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.3.3/manifests"},{"name":"release-1.3.2","sha":"3a794c3d4151a74e11f0ab0d3f02b8de6d5bcc9c","kind":"commit","published_at":"2020-07-20T04:14:53.000Z","download_url":"https://codeload.github.com/RJWANGbioinfo/APAlyzer/tar.gz/release-1.3.2","html_url":"https://github.com/RJWANGbioinfo/APAlyzer/releases/tag/release-1.3.2","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.3.2","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.3.2/manifests"},{"name":"release-1.3.1","sha":"ce69811c9b198e1bdfc142821b91f3c23881c152","kind":"commit","published_at":"2020-07-19T16:52:34.000Z","download_url":"https://codeload.github.com/RJWANGbioinfo/APAlyzer/tar.gz/release-1.3.1","html_url":"https://github.com/RJWANGbioinfo/APAlyzer/releases/tag/release-1.3.1","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.3.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.3.1/manifests"},{"name":"release-1.1.4","sha":"51ba5a69f23116b60417c876c9b251d6d966b93a","kind":"commit","published_at":"2020-07-19T16:02:32.000Z","download_url":"https://codeload.github.com/RJWANGbioinfo/APAlyzer/tar.gz/release-1.1.4","html_url":"https://github.com/RJWANGbioinfo/APAlyzer/releases/tag/release-1.1.4","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.1.4","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.1.4/manifests"},{"name":"release-1.1.2","sha":"85e39e0fc9c19ef69a1bbac62d8ad8bf11694c91","kind":"commit","published_at":"2020-03-19T06:02:00.000Z","download_url":"https://codeload.github.com/RJWANGbioinfo/APAlyzer/tar.gz/release-1.1.2","html_url":"https://github.com/RJWANGbioinfo/APAlyzer/releases/tag/release-1.1.2","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.1.2","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.1.2/manifests"},{"name":"release-1.1.1","sha":"328a8d7a1be035ba822806ea386f7fd5e338a5d5","kind":"commit","published_at":"2020-03-17T04:21:01.000Z","download_url":"https://codeload.github.com/RJWANGbioinfo/APAlyzer/tar.gz/release-1.1.1","html_url":"https://github.com/RJWANGbioinfo/APAlyzer/releases/tag/release-1.1.1","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.1.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/release-1.1.1/manifests"},{"name":"1.0.1","sha":"e6074d1d986bf50834e9e132e5dc2c002b9abb31","kind":"commit","published_at":"2020-01-29T05:32:11.000Z","download_url":"https://codeload.github.com/RJWANGbioinfo/APAlyzer/tar.gz/1.0.1","html_url":"https://github.com/RJWANGbioinfo/APAlyzer/releases/tag/1.0.1","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/1.0.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/tags/1.0.1/manifests"}]},"repo_metadata_updated_at":"2023-11-20T12:05:41.220Z","dependent_packages_count":0,"downloads":11994,"downloads_period":"total","dependent_repos_count":0,"rankings":{"downloads":67.07317073170732,"dependent_repos_count":0.0,"dependent_packages_count":0.0,"stargazers_count":null,"forks_count":null,"docker_downloads_count":null,"average":22.357723577235774},"purl":"pkg:bioconductor/APAlyzer","advisories":[],"docker_usage_url":"https://docker.ecosyste.ms/usage/bioconductor/APAlyzer","docker_dependents_count":null,"docker_downloads_count":null,"usage_url":"https://repos.ecosyste.ms/usage/bioconductor/APAlyzer","dependent_repositories_url":"https://repos.ecosyste.ms/api/v1/usage/bioconductor/APAlyzer/dependencies","status":null,"funding_links":[],"critical":null,"issue_metadata":null,"versions_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/packages/APAlyzer/versions","version_numbers_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/packages/APAlyzer/version_numbers","dependent_packages_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/packages/APAlyzer/dependent_packages","related_packages_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/packages/APAlyzer/related_packages","maintainers":[{"uuid":"rjwang.bioinfo@gmail.com","login":null,"name":"Ruijia Wang","email":"rjwang.bioinfo@gmail.com","url":null,"packages_count":1,"html_url":null,"role":null,"created_at":"2023-11-20T12:10:08.703Z","updated_at":"2023-11-20T12:10:08.703Z","packages_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/maintainers/rjwang.bioinfo@gmail.com/packages"}],"registry":{"name":"bioconductor.org","url":"https://bioconductor.org","ecosystem":"bioconductor","default":true,"packages_count":2505,"maintainers_count":3164,"namespaces_count":0,"keywords_count":1086,"github":"Bioconductor","metadata":{"funded_packages_count":3},"icon_url":"https://github.com/Bioconductor.png","created_at":"2023-10-12T14:09:56.428Z","updated_at":"2025-09-08T06:51:28.460Z","packages_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/packages","maintainers_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/maintainers","namespaces_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/namespaces"}}],"commits":{"id":1402716,"full_name":"RJWANGbioinfo/APAlyzer","default_branch":"master","committers":[{"name":"RJwang Admin","email":"rjwang.bioinfo@gmail.com","login":null,"count":129},{"name":"Ruijia Wang","email":"51307984+RJWANGbioinfo","login":"RJWANGbioinfo","count":21},{"name":"Nitesh Turaga","email":"nitesh.turaga@gmail.com","login":null,"count":10},{"name":"Lori Shepherd","email":"lori.shepherd@roswellpark.org","login":null,"count":2}],"total_commits":162,"total_committers":4,"total_bot_commits":0,"total_bot_committers":0,"mean_commits":40.5,"dds":0.20370370370370372,"past_year_committers":[],"past_year_total_commits":0,"past_year_total_committers":0,"past_year_total_bot_commits":0,"past_year_total_bot_committers":0,"past_year_mean_commits":0.0,"past_year_dds":0.0,"last_synced_at":"2023-10-25T13:02:53.745Z","last_synced_commit":"eb200b8d039b11f964703fa9b4e75c655e0b69da","created_at":"2023-10-25T13:02:42.793Z","updated_at":"2023-10-25T13:02:53.745Z","commits_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/commits","host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-08T00:00:16.827Z","repositories_count":5483322,"commits_count":854270774,"contributors_count":31138750,"owners_count":908526,"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":"RJWANGbioinfo/APAlyzer","html_url":"https://github.com/RJWANGbioinfo/APAlyzer","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":"2025-08-29T17:43:53.818Z","updated_at":"2025-09-01T07:53:53.787Z","repository_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer","issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/RJWANGbioinfo%2FAPAlyzer/issues","issue_labels_count":{},"pull_request_labels_count":{},"issue_author_associations_count":{"NONE":3},"pull_request_author_associations_count":{},"issue_authors":{"zys-69":1,"LOCALOCALOCALOCA":1,"reck999":1},"pull_request_authors":{},"host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-08T00:00:17.013Z","repositories_count":10166699,"issues_count":32013288,"pull_requests_count":100268859,"authors_count":10729412,"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":{"NONE":1},"past_year_pull_request_author_associations_count":{},"past_year_issue_authors":{"zys-69":1},"past_year_pull_request_authors":{},"maintainers":[],"active_maintainers":[]},"events":{"total":{"IssuesEvent":1,"WatchEvent":3,"IssueCommentEvent":1},"last_year":{"IssuesEvent":1,"WatchEvent":3,"IssueCommentEvent":1}},"keywords":["ative-polyadenylation","bioinformatics-tool","rna-seq"],"dependencies":[{"ecosystem":"cran","filepath":"DESCRIPTION","sha":null,"kind":"manifest","created_at":"2022-08-30T02:50:49.220Z","updated_at":"2022-08-30T02:50:49.220Z","repository_link":"https://github.com/RJWANGbioinfo/APAlyzer/blob/master/DESCRIPTION","dependencies":[{"id":3251331416,"package_name":"R","ecosystem":"cran","requirements":"\u003e= 3.5.0","direct":true,"kind":"depends","optional":false},{"id":3251331417,"package_name":"GenomicRanges","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":3251331418,"package_name":"GenomicFeatures","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":3251331419,"package_name":"GenomicAlignments","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":3251331420,"package_name":"DESeq2","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":3251331421,"package_name":"ggrepel","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":3251331422,"package_name":"SummarizedExperiment","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":3251331423,"package_name":"Rsubread","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":3251331424,"package_name":"stats","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":3251331425,"package_name":"ggplot2","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":3251331426,"package_name":"methods","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":3251331427,"package_name":"rtracklayer","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":3251331428,"package_name":"VariantAnnotation","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":3251331429,"package_name":"dplyr","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":3251331430,"package_name":"tidyr","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":3251331431,"package_name":"repmis","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":3251331432,"package_name":"Rsamtools","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":3251331433,"package_name":"HybridMTest","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":3251331434,"package_name":"knitr","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":3251331435,"package_name":"rmarkdown","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":3251331436,"package_name":"BiocStyle","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":3251331437,"package_name":"org.Mm.eg.db","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":3251331438,"package_name":"AnnotationDbi","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":3251331439,"package_name":"TBX20BamSubset","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":3251331440,"package_name":"testthat","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":3251331441,"package_name":"pasillaBamSubset","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false}]}],"score":12.724449685448999,"created_at":"2025-09-08T11:18:42.248Z","updated_at":"2025-10-07T08:25:09.531Z","avatar_url":"https://github.com/RJWANGbioinfo.png","language":"R","category":null,"sub_category":null,"monthly_downloads":0,"funding_links":[],"readme_doi_urls":["https://doi.org/10.1093/bioinformatics/btaa266"],"works":{},"citation_counts":{},"total_citations":0,"keywords_from_contributors":["bioconductor-package","gene","genomics","proteomics"],"project_url":"https://science.ecosyste.ms/api/v1/projects/66377","html_url":"https://science.ecosyste.ms/projects/66377"}