{"id":61966,"name":"hermes","description":"Preprocessing, analyzing, and reporting of RNA-seq data","url":"https://github.com/insightsengineering/hermes","last_synced_at":"2025-09-08T12:35:00.913Z","repository":{"id":38311464,"uuid":"383270687","full_name":"insightsengineering/hermes","owner":"insightsengineering","description":"Preprocessing, analyzing, and reporting of RNA-seq data","archived":false,"fork":false,"pushed_at":"2025-09-02T11:14:42.000Z","size":56641,"stargazers_count":12,"open_issues_count":5,"forks_count":2,"subscribers_count":21,"default_branch":"main","last_synced_at":"2025-09-02T11:33:01.710Z","etag":null,"topics":["r","r-package","rna-seq","rstats","statistical-engineering"],"latest_commit_sha":null,"homepage":"https://insightsengineering.github.io/hermes/","language":"R","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":null,"status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/insightsengineering.png","metadata":{"files":{"readme":"README.Rmd","changelog":"NEWS.md","contributing":".github/CONTRIBUTING.md","funding":null,"license":null,"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,"notice":null,"maintainers":null,"copyright":null,"agents":null,"dco":null,"cla":null},"funding":{"custom":["https://pharmaverse.org"]}},"created_at":"2021-07-05T21:42:48.000Z","updated_at":"2025-08-12T09:55:17.000Z","dependencies_parsed_at":"2024-02-13T12:42:26.808Z","dependency_job_id":"66d805cc-1c02-4581-8d82-fc98894c6740","html_url":"https://github.com/insightsengineering/hermes","commit_stats":{"total_commits":562,"total_committers":42,"mean_commits":"13.380952380952381","dds":0.699288256227758,"last_synced_commit":"dc66117fb5d577d72a318e007d83b76927a40f0c"},"previous_names":[],"tags_count":13,"template":false,"template_full_name":null,"purl":"pkg:github/insightsengineering/hermes","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/insightsengineering","download_url":"https://codeload.github.com/insightsengineering/hermes/tar.gz/refs/heads/main","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":274174271,"owners_count":25235203,"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":"insightsengineering","name":"Roche/Genentech - Insights Engineering","uuid":"80070020","kind":"organization","description":"Roche/Genentech - Insights Engineering","email":null,"website":"https://code4life.roche.com/","location":"Switzerland","twitter":null,"company":null,"icon_url":"https://avatars.githubusercontent.com/u/80070020?v=4","repositories_count":53,"last_synced_at":"2023-03-03T20:40:49.129Z","metadata":{"has_sponsors_listing":false,"funding":{"custom":["https://pharmaverse.org"]}},"html_url":"https://github.com/insightsengineering","funding_links":["https://pharmaverse.org"],"total_stars":null,"followers":null,"following":null,"created_at":"2022-11-14T05:24:25.614Z","updated_at":"2023-03-03T20:40:49.285Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/insightsengineering","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/insightsengineering/repositories"},"packages":[{"id":8419617,"name":"hermes","ecosystem":"bioconductor","description":"Preprocessing, analyzing, and reporting of RNA-seq data","homepage":"https://github.com/insightsengineering/hermes/ ","licenses":"Apache License 2.0","normalized_licenses":["Apache-2.0"],"repository_url":"https://github.com/insightsengineering/hermes","keywords_array":["DifferentialExpression","Normalization","Preprocessing","QualityControl","RNASeq","Software"],"namespace":null,"versions_count":7,"first_release_published_at":"2023-10-12T14:38:26.729Z","latest_release_published_at":"2025-05-14T05:04:52.301Z","latest_release_number":"1.12.1","last_synced_at":"2025-09-02T11:46:45.988Z","created_at":"2023-10-12T14:38:26.581Z","updated_at":"2025-09-02T15:23:20.834Z","registry_url":"https://bioconductor.org/packages/hermes","install_command":null,"documentation_url":"https://bioconductor.org/packages/release/bioc/vignettes/hermes/inst/doc/hermes.pdf","metadata":{},"repo_metadata":{"id":38311464,"uuid":"383270687","full_name":"insightsengineering/hermes","owner":"insightsengineering","description":"Preprocessing, analyzing, and reporting of RNA-seq data","archived":false,"fork":false,"pushed_at":"2025-09-02T11:14:42.000Z","size":56641,"stargazers_count":12,"open_issues_count":5,"forks_count":2,"subscribers_count":21,"default_branch":"main","last_synced_at":"2025-09-02T11:33:01.710Z","etag":null,"topics":["r","r-package","rna-seq","rstats","statistical-engineering"],"latest_commit_sha":null,"homepage":"https://insightsengineering.github.io/hermes/","language":"R","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":null,"status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/insightsengineering.png","metadata":{"files":{"readme":"README.Rmd","changelog":"NEWS.md","contributing":".github/CONTRIBUTING.md","funding":null,"license":null,"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,"notice":null,"maintainers":null,"copyright":null,"agents":null,"dco":null,"cla":null},"funding":{"custom":["https://pharmaverse.org"]}},"created_at":"2021-07-05T21:42:48.000Z","updated_at":"2025-08-12T09:55:17.000Z","dependencies_parsed_at":"2024-02-13T12:42:26.808Z","dependency_job_id":"66d805cc-1c02-4581-8d82-fc98894c6740","html_url":"https://github.com/insightsengineering/hermes","commit_stats":{"total_commits":562,"total_committers":42,"mean_commits":"13.380952380952381","dds":0.699288256227758,"last_synced_commit":"dc66117fb5d577d72a318e007d83b76927a40f0c"},"previous_names":[],"tags_count":13,"template":false,"template_full_name":null,"purl":"pkg:github/insightsengineering/hermes","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/insightsengineering","download_url":"https://codeload.github.com/insightsengineering/hermes/tar.gz/refs/heads/main","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":273303532,"owners_count":25081461,"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":"2025-09-02T02:00:09.530Z","response_time":77,"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_record":{"login":"insightsengineering","name":"Roche/Genentech - Insights Engineering","uuid":"80070020","kind":"organization","description":"Roche/Genentech - Insights Engineering","email":null,"website":"https://code4life.roche.com/","location":"Switzerland","twitter":null,"company":null,"icon_url":"https://avatars.githubusercontent.com/u/80070020?v=4","repositories_count":53,"last_synced_at":"2023-03-03T20:40:49.129Z","metadata":{"has_sponsors_listing":false,"funding":{"custom":["https://pharmaverse.org"]}},"html_url":"https://github.com/insightsengineering","funding_links":["https://pharmaverse.org"],"total_stars":null,"followers":null,"following":null,"created_at":"2022-11-14T05:24:25.614Z","updated_at":"2023-03-03T20:40:49.285Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/insightsengineering","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/insightsengineering/repositories"},"tags":[{"name":"v1.7.2","sha":"fdf4ec82e3643e6a632b2cb29b1db6ae7943e434","kind":"tag","published_at":"2024-06-27T14:02:08.000Z","download_url":"https://codeload.github.com/insightsengineering/hermes/tar.gz/v1.7.2","html_url":"https://github.com/insightsengineering/hermes/releases/tag/v1.7.2","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/insightsengineering/hermes@v1.7.2","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/v1.7.2","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/v1.7.2/manifests"},{"name":"v1.7.1","sha":"5b0ca967fee1c49dccf6f9aba2905c85a9f9c323","kind":"commit","published_at":"2024-02-13T20:50:55.000Z","download_url":"https://codeload.github.com/insightsengineering/hermes/tar.gz/v1.7.1","html_url":"https://github.com/insightsengineering/hermes/releases/tag/v1.7.1","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/insightsengineering/hermes@v1.7.1","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/v1.7.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/v1.7.1/manifests"},{"name":"2022_10_13","sha":"5b2acca5b5e908d53532cc7735d035aa99d5c829","kind":"commit","published_at":"2022-10-13T15:38:19.000Z","download_url":"https://codeload.github.com/insightsengineering/hermes/tar.gz/2022_10_13","html_url":"https://github.com/insightsengineering/hermes/releases/tag/2022_10_13","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/insightsengineering/hermes@2022_10_13","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/2022_10_13","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/2022_10_13/manifests"},{"name":"2022_08_16","sha":"f8259a990e99dcdd29abf28f17b2965db549fbc6","kind":"commit","published_at":"2022-07-27T12:20:02.000Z","download_url":"https://codeload.github.com/insightsengineering/hermes/tar.gz/2022_08_16","html_url":"https://github.com/insightsengineering/hermes/releases/tag/2022_08_16","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/insightsengineering/hermes@2022_08_16","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/2022_08_16","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/2022_08_16/manifests"},{"name":"2022_06_09","sha":"a665dc75d3b62326481096f70020fa4e7e587c20","kind":"commit","published_at":"2022-05-30T08:12:43.000Z","download_url":"https://codeload.github.com/insightsengineering/hermes/tar.gz/2022_06_09","html_url":"https://github.com/insightsengineering/hermes/releases/tag/2022_06_09","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/insightsengineering/hermes@2022_06_09","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/2022_06_09","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/2022_06_09/manifests"},{"name":"2022_04_07","sha":"9cd00650301836c2b72821b02ebf1c02abcb3a04","kind":"commit","published_at":"2022-04-04T16:27:17.000Z","download_url":"https://codeload.github.com/insightsengineering/hermes/tar.gz/2022_04_07","html_url":"https://github.com/insightsengineering/hermes/releases/tag/2022_04_07","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/insightsengineering/hermes@2022_04_07","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/2022_04_07","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/2022_04_07/manifests"},{"name":"v0.99.5","sha":"c090c9ef05b96f6fb489c9110cb01054ec085cdc","kind":"commit","published_at":"2022-01-27T11:08:27.000Z","download_url":"https://codeload.github.com/insightsengineering/hermes/tar.gz/v0.99.5","html_url":"https://github.com/insightsengineering/hermes/releases/tag/v0.99.5","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/insightsengineering/hermes@v0.99.5","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/v0.99.5","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/v0.99.5/manifests"},{"name":"2022_01_28","sha":"c090c9ef05b96f6fb489c9110cb01054ec085cdc","kind":"commit","published_at":"2022-01-27T11:08:27.000Z","download_url":"https://codeload.github.com/insightsengineering/hermes/tar.gz/2022_01_28","html_url":"https://github.com/insightsengineering/hermes/releases/tag/2022_01_28","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/insightsengineering/hermes@2022_01_28","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/2022_01_28","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/2022_01_28/manifests"},{"name":"2021_10_13","sha":"eaed2c8362b6dce7fa3c38867cbcd612b8918076","kind":"commit","published_at":"2021-10-12T08:54:42.000Z","download_url":"https://codeload.github.com/insightsengineering/hermes/tar.gz/2021_10_13","html_url":"https://github.com/insightsengineering/hermes/releases/tag/2021_10_13","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/insightsengineering/hermes@2021_10_13","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/2021_10_13","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/2021_10_13/manifests"},{"name":"v0.1.1","sha":"eaed2c8362b6dce7fa3c38867cbcd612b8918076","kind":"commit","published_at":"2021-10-12T08:54:42.000Z","download_url":"https://codeload.github.com/insightsengineering/hermes/tar.gz/v0.1.1","html_url":"https://github.com/insightsengineering/hermes/releases/tag/v0.1.1","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/insightsengineering/hermes@v0.1.1","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/v0.1.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/v0.1.1/manifests"},{"name":"v0.1.1-rc@pre-release","sha":"eaed2c8362b6dce7fa3c38867cbcd612b8918076","kind":"commit","published_at":"2021-10-12T08:54:42.000Z","download_url":"https://codeload.github.com/insightsengineering/hermes/tar.gz/v0.1.1-rc@pre-release","html_url":"https://github.com/insightsengineering/hermes/releases/tag/v0.1.1-rc@pre-release","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/insightsengineering/hermes@v0.1.1-rc%40pre-release","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/v0.1.1-rc@pre-release","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/v0.1.1-rc@pre-release/manifests"},{"name":"2021_07_07","sha":"fe865ca0ff1376658664e7cafc970e25353f41e9","kind":"commit","published_at":"2021-07-01T12:09:55.000Z","download_url":"https://codeload.github.com/insightsengineering/hermes/tar.gz/2021_07_07","html_url":"https://github.com/insightsengineering/hermes/releases/tag/2021_07_07","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/insightsengineering/hermes@2021_07_07","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/2021_07_07","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/2021_07_07/manifests"},{"name":"v0.1.0","sha":"fe865ca0ff1376658664e7cafc970e25353f41e9","kind":"commit","published_at":"2021-07-01T12:09:55.000Z","download_url":"https://codeload.github.com/insightsengineering/hermes/tar.gz/v0.1.0","html_url":"https://github.com/insightsengineering/hermes/releases/tag/v0.1.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/insightsengineering/hermes@v0.1.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/v0.1.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/tags/v0.1.0/manifests"}]},"repo_metadata_updated_at":"2025-09-02T15:23:20.834Z","dependent_packages_count":0,"downloads":10136,"downloads_period":"total","dependent_repos_count":0,"rankings":{"downloads":86.84782608695653,"dependent_repos_count":0.0,"dependent_packages_count":0.0,"stargazers_count":null,"forks_count":null,"docker_downloads_count":null,"average":28.949275362318843},"purl":"pkg:bioconductor/hermes","advisories":[],"docker_usage_url":"https://docker.ecosyste.ms/usage/bioconductor/hermes","docker_dependents_count":null,"docker_downloads_count":null,"usage_url":"https://repos.ecosyste.ms/usage/bioconductor/hermes","dependent_repositories_url":"https://repos.ecosyste.ms/api/v1/usage/bioconductor/hermes/dependencies","status":null,"funding_links":["https://pharmaverse.org"],"critical":null,"issue_metadata":{"last_synced_at":"2025-09-02T15:06:07.867Z","issues_count":22,"pull_requests_count":89,"avg_time_to_close_issue":2988387.3,"avg_time_to_close_pull_request":331081.3095238095,"issues_closed_count":20,"pull_requests_closed_count":84,"pull_request_authors_count":19,"issue_authors_count":5,"avg_comments_per_issue":0.9090909090909091,"avg_comments_per_pull_request":2.966292134831461,"merged_pull_requests_count":78,"bot_issues_count":0,"bot_pull_requests_count":0,"past_year_issues_count":0,"past_year_pull_requests_count":6,"past_year_avg_time_to_close_issue":null,"past_year_avg_time_to_close_pull_request":236556.33333333334,"past_year_issues_closed_count":0,"past_year_pull_requests_closed_count":3,"past_year_pull_request_authors_count":3,"past_year_issue_authors_count":0,"past_year_avg_comments_per_issue":null,"past_year_avg_comments_per_pull_request":4.833333333333333,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":0,"past_year_merged_pull_requests_count":3,"issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/issues","maintainers":[{"login":"danielinteractive","count":35,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/danielinteractive"},{"login":"mhallal1","count":2,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/mhallal1"},{"login":"gravesti","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/gravesti"}],"active_maintainers":[{"login":"gravesti","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/gravesti"}]},"versions_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/packages/hermes/versions","version_numbers_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/packages/hermes/version_numbers","dependent_packages_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/packages/hermes/dependent_packages","related_packages_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/packages/hermes/related_packages","maintainers":[{"uuid":"daniel.sabanes_bove@rconis.com","login":null,"name":"Daniel Sabanés Bové","email":"daniel.sabanes_bove@rconis.com","url":null,"packages_count":1,"html_url":null,"role":null,"created_at":"2024-07-16T10:34:29.867Z","updated_at":"2024-07-16T10:34:29.867Z","packages_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/maintainers/daniel.sabanes_bove@rconis.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":1403255,"full_name":"insightsengineering/hermes","default_branch":"main","committers":[{"name":"Daniel Sabanes Bove","email":"daniel.sabanes_bove@roche.com","login":null,"count":169},{"name":"Daniel Sabanes Bove","email":"danielinteractive","login":"danielinteractive","count":47},{"name":"Jeff Luong","email":"jeff.luong@roche.com","login":null,"count":47},{"name":"Stefanie","email":"stefanie.bienert.sb1@roche.com","login":null,"count":45},{"name":"Simona Rossomanno","email":"simona.rossomanno@roche.com","login":null,"count":41},{"name":"Namrata Bhatia","email":"bhatian3@gene.com","login":null,"count":33},{"name":"Haocheng","email":"haocheng.li@roche.com","login":null,"count":21},{"name":"Dinakar","email":"26552821+dinakar29","login":"dinakar29","count":19},{"name":"Insights Engineering Bot","email":"68416928+insights-engineering-bot","login":"insights-engineering-bot","count":15},{"name":"walkowif","email":"59475134+walkowif","login":"walkowif","count":14},{"name":"arkadiuszbeer","email":"86738093+arkadiuszbeer","login":"arkadiuszbeer","count":11},{"name":"Lyndsee Z","email":"zhanl238@gene.com","login":null,"count":10},{"name":"Dave","email":"13086223+knightdave","login":"knightdave","count":10},{"name":"Zhang, Lyndsee Midori {MDBN~South San Francisco}","email":"zhang.lyndsee@gene.com","login":null,"count":8},{"name":"Bhatia, Namrata {MDBN~South San Francisco}","email":"bhatia.namrata@gene.com","login":null,"count":6},{"name":"colinisstudent","email":"87772156+colinisstudent","login":"colinisstudent","count":6},{"name":"Nikolas Burkoff","email":"nikolas.burkoff@roche.com","login":null,"count":5},{"name":"Pawel Rucki","email":"pawelrucki@gmail.com","login":null,"count":4},{"name":"b_falquet","email":"64274616+BFalquet","login":"BFalquet","count":4},{"name":"Konrad Pagacz","email":"konrad.pagacz@contractors.roche.com","login":null,"count":4},{"name":"namratabhatia","email":"53239049+namratabhatia","login":"namratabhatia","count":4},{"name":"Pawel Rucki","email":"pawel.rucki@roche.com","login":null,"count":3},{"name":"J Zhao","email":"jzhao31415@gmail.com","login":null,"count":3},{"name":"Tim Treis","email":"tim.treis@roche.com","login":null,"count":3},{"name":"Jeff Luong","email":"87994544+luongj3","login":"luongj3","count":3},{"name":"Stefanie Bienert","email":"75780729+bienerts","login":"bienerts","count":3},{"name":"pawelru","email":"pawelru","login":"pawelru","count":3},{"name":"Mahmoud Hallal","email":"86970066+mhallal1","login":"mhallal1","count":2},{"name":"cicdguy","email":"cicdguy","login":"cicdguy","count":2},{"name":"alexjoerich","email":"73207272+alexjoerich","login":"alexjoerich","count":2},{"name":"Marcin","email":"133694481+m7pr","login":"m7pr","count":2},{"name":"Tomasz Woźniak","email":"tomlee@cybertronika.eu","login":null,"count":2},{"name":"Adrian Waddell","email":"adrian.waddell@roche.com","login":null,"count":2},{"name":"nikolas-burkoff","email":"nikolas-burkoff","login":"nikolas-burkoff","count":1},{"name":"moronip81","email":"130590957+moronip81","login":"moronip81","count":1},{"name":"tomszosz","email":"42359321+tomszosz","login":"tomszosz","count":1},{"name":"Voicu, Sorin {FPDN~Kaiseraugst}","email":"sorin.voicu@roche.com","login":null,"count":1},{"name":"junlueZH","email":"junlueZH","login":"junlueZH","count":1},{"name":"Polkas","email":"nasinski.maciej@gmail.com","login":null,"count":1},{"name":"Nikolas Burkoff","email":"nikolas.burkoff@tessella.com","login":null,"count":1},{"name":"Adrian Waddell","email":"adrian@waddell.ch","login":null,"count":1},{"name":"Lyndsee Z","email":"39424598+codesformochi","login":"codesformochi","count":1}],"total_commits":562,"total_committers":42,"total_bot_commits":0,"total_bot_committers":0,"mean_commits":13.380952380952381,"dds":0.699288256227758,"past_year_committers":[{"name":"walkowif","email":"59475134+walkowif","login":"walkowif","count":14},{"name":"danielinteractive","email":"danielinteractive","login":"danielinteractive","count":8},{"name":"Marcin","email":"133694481+m7pr","login":"m7pr","count":2},{"name":"Pawel Rucki","email":"pawelrucki@gmail.com","login":null,"count":2},{"name":"pawelru","email":"pawelru","login":"pawelru","count":2},{"name":"cicdguy","email":"cicdguy","login":"cicdguy","count":2},{"name":"moronip81","email":"130590957+moronip81","login":"moronip81","count":1},{"name":"alexjoerich","email":"73207272+alexjoerich","login":"alexjoerich","count":1},{"name":"Insights Engineering Bot","email":"68416928+insights-engineering-bot","login":"insights-engineering-bot","count":1}],"past_year_total_commits":33,"past_year_total_committers":9,"past_year_total_bot_commits":0,"past_year_total_bot_committers":0,"past_year_mean_commits":3.6666666666666665,"past_year_dds":0.5757575757575757,"last_synced_at":"2023-10-25T13:16:10.199Z","last_synced_commit":"dc66117fb5d577d72a318e007d83b76927a40f0c","created_at":"2023-10-25T13:15:56.334Z","updated_at":"2023-10-25T13:16:10.200Z","commits_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/commits","host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-05T00:00:10.343Z","repositories_count":5480019,"commits_count":853389012,"contributors_count":31098138,"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":"insightsengineering/hermes","html_url":"https://github.com/insightsengineering/hermes","last_synced_at":"2025-09-02T15:06:07.867Z","status":null,"issues_count":22,"pull_requests_count":89,"avg_time_to_close_issue":2988387.3,"avg_time_to_close_pull_request":331081.3095238095,"issues_closed_count":20,"pull_requests_closed_count":84,"pull_request_authors_count":19,"issue_authors_count":5,"avg_comments_per_issue":0.9090909090909091,"avg_comments_per_pull_request":2.966292134831461,"merged_pull_requests_count":78,"bot_issues_count":0,"bot_pull_requests_count":0,"past_year_issues_count":0,"past_year_pull_requests_count":6,"past_year_avg_time_to_close_issue":null,"past_year_avg_time_to_close_pull_request":236556.33333333334,"past_year_issues_closed_count":0,"past_year_pull_requests_closed_count":3,"past_year_pull_request_authors_count":3,"past_year_issue_authors_count":0,"past_year_avg_comments_per_issue":null,"past_year_avg_comments_per_pull_request":4.833333333333333,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":0,"past_year_merged_pull_requests_count":3,"created_at":"2024-10-23T00:12:52.801Z","updated_at":"2025-09-03T03:11:12.156Z","repository_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes","issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/insightsengineering%2Fhermes/issues","issue_labels_count":{"bug":8,"devops":6,"SP1":5,"SP3":3,"SP2":3,"biomarker":2,"documentation":2,"good first issue":2,"core":1,"enhancement":1,"SP5":1,"priority":1},"pull_request_labels_count":{"core":16,"automation":6,"biomarker":4,"documentation":2,"bug":2,"blocked":1,"devops":1},"issue_author_associations_count":{"COLLABORATOR":15,"CONTRIBUTOR":7},"pull_request_author_associations_count":{"CONTRIBUTOR":66,"COLLABORATOR":22,"NONE":1},"issue_authors":{"danielinteractive":15,"pawelru":3,"cicdguy":2,"nikolas-burkoff":1,"BFalquet":1},"pull_request_authors":{"danielinteractive":19,"walkowif":13,"insights-engineering-bot":10,"arkadiuszbeer":6,"m7pr":5,"BFalquet":5,"vedhav":4,"pawelru":4,"knightdave":4,"cicdguy":4,"tomszosz":2,"kpagacz":2,"nikolas-burkoff":2,"alexjoerich":2,"denisovan31415":2,"mhallal1":2,"fanooel":1,"gravesti":1,"moronip81":1},"host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-08T00:00:17.013Z","repositories_count":10164853,"issues_count":31989996,"pull_requests_count":100212161,"authors_count":10728603,"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":{"core":5},"past_year_issue_author_associations_count":{},"past_year_pull_request_author_associations_count":{"CONTRIBUTOR":6,"COLLABORATOR":1},"past_year_issue_authors":{},"past_year_pull_request_authors":{"m7pr":4,"vedhav":2,"gravesti":1},"maintainers":[{"login":"danielinteractive","count":34,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/danielinteractive"},{"login":"mhallal1","count":2,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/mhallal1"},{"login":"gravesti","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/gravesti"}],"active_maintainers":[{"login":"gravesti","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/gravesti"}]},"events":{"total":{"WatchEvent":2,"DeleteEvent":7,"IssueCommentEvent":24,"PushEvent":63,"PullRequestReviewCommentEvent":4,"PullRequestReviewEvent":10,"PullRequestEvent":7,"CreateEvent":6},"last_year":{"WatchEvent":2,"DeleteEvent":7,"IssueCommentEvent":24,"PushEvent":63,"PullRequestReviewCommentEvent":4,"PullRequestReviewEvent":10,"PullRequestEvent":7,"CreateEvent":6}},"keywords":["r","r-package","rna-seq","rstats","statistical-engineering"],"dependencies":[{"ecosystem":"cran","filepath":"DESCRIPTION","sha":null,"kind":"manifest","created_at":"2022-07-12T17:24:37.132Z","updated_at":"2022-07-12T17:24:37.132Z","repository_link":"https://github.com/insightsengineering/hermes/blob/main/DESCRIPTION","dependencies":[{"id":184616872,"package_name":"ggrepel","ecosystem":"cran","requirements":"\u003e= 0.9","direct":true,"kind":"imports","optional":false},{"id":184616873,"package_name":"IRanges","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616874,"package_name":"lifecycle","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616855,"package_name":"ggfortify","ecosystem":"cran","requirements":"*","direct":true,"kind":"depends","optional":false},{"id":184616856,"package_name":"R","ecosystem":"cran","requirements":"\u003e= 3.5","direct":true,"kind":"depends","optional":false},{"id":184616857,"package_name":"SummarizedExperiment","ecosystem":"cran","requirements":"\u003e= 1.16","direct":true,"kind":"depends","optional":false},{"id":184616858,"package_name":"assertthat","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616859,"package_name":"Biobase","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616860,"package_name":"BiocGenerics","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616861,"package_name":"biomaRt","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616862,"package_name":"checkmate","ecosystem":"cran","requirements":"\u003e= 2.1","direct":true,"kind":"imports","optional":false},{"id":184616863,"package_name":"circlize","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616864,"package_name":"ComplexHeatmap","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616865,"package_name":"DESeq2","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616866,"package_name":"dplyr","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616867,"package_name":"edgeR","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616868,"package_name":"EnvStats","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616869,"package_name":"forcats","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616870,"package_name":"GenomicRanges","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616871,"package_name":"ggplot2","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616875,"package_name":"limma","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616876,"package_name":"magrittr","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616877,"package_name":"matrixStats","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616878,"package_name":"methods","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616879,"package_name":"MultiAssayExperiment","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616880,"package_name":"purrr","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616881,"package_name":"R6","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616882,"package_name":"Rdpack","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616883,"package_name":"rlang","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616884,"package_name":"S4Vectors","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616885,"package_name":"stats","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616886,"package_name":"tidyr","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616887,"package_name":"utils","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":184616888,"package_name":"BiocStyle","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":184616889,"package_name":"DelayedArray","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":184616890,"package_name":"DT","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":184616891,"package_name":"grid","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":184616892,"package_name":"httr","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":184616893,"package_name":"knitr","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":184616894,"package_name":"rmarkdown","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":184616895,"package_name":"statmod","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":184616896,"package_name":"testthat","ecosystem":"cran","requirements":"\u003e= 2.0","direct":true,"kind":"suggests","optional":false},{"id":184616897,"package_name":"vdiffr","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/check.yaml","sha":null,"kind":"manifest","created_at":"2023-12-11T15:46:42.890Z","updated_at":"2023-12-11T15:46:42.890Z","repository_link":"https://github.com/insightsengineering/hermes/blob/main/.github/workflows/check.yaml","dependencies":[]},{"ecosystem":"actions","filepath":".github/workflows/docs.yaml","sha":null,"kind":"manifest","created_at":"2023-12-11T15:46:42.930Z","updated_at":"2023-12-11T15:46:42.930Z","repository_link":"https://github.com/insightsengineering/hermes/blob/main/.github/workflows/docs.yaml","dependencies":[]},{"ecosystem":"actions","filepath":".github/workflows/post-release.yaml","sha":null,"kind":"manifest","created_at":"2023-12-11T15:46:42.963Z","updated_at":"2023-12-11T15:46:42.963Z","repository_link":"https://github.com/insightsengineering/hermes/blob/main/.github/workflows/post-release.yaml","dependencies":[]},{"ecosystem":"actions","filepath":".github/workflows/release.yaml","sha":null,"kind":"manifest","created_at":"2023-12-11T15:46:42.981Z","updated_at":"2023-12-11T15:46:42.981Z","repository_link":"https://github.com/insightsengineering/hermes/blob/main/.github/workflows/release.yaml","dependencies":[]}],"score":15.794830337721985,"created_at":"2025-09-08T10:47:27.257Z","updated_at":"2025-10-07T08:24:14.894Z","avatar_url":"https://github.com/insightsengineering.png","language":"R","category":null,"sub_category":null,"monthly_downloads":0,"funding_links":["https://pharmaverse.org"],"readme_doi_urls":[],"works":{},"citation_counts":{},"total_citations":0,"keywords_from_contributors":[],"project_url":"https://science.ecosyste.ms/api/v1/projects/61966","html_url":"https://science.ecosyste.ms/projects/61966"}