{"id":14067606,"url":"https://github.com/Bioconductor/BiocManager","last_synced_at":"2025-07-30T02:30:47.537Z","repository":{"id":30412452,"uuid":"33965307","full_name":"Bioconductor/BiocManager","owner":"Bioconductor","description":"CRAN Package For Managing Bioconductor Packages","archived":false,"fork":false,"pushed_at":"2025-06-05T20:36:27.000Z","size":1043,"stargazers_count":75,"open_issues_count":21,"forks_count":26,"subscribers_count":14,"default_branch":"devel","last_synced_at":"2025-07-07T21:15:53.495Z","etag":null,"topics":["core-services","cran","r-package"],"latest_commit_sha":null,"homepage":"https://bioconductor.github.io/BiocManager/","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/Bioconductor.png","metadata":{"files":{"readme":"README.Rmd","changelog":"NEWS","contributing":null,"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}},"created_at":"2015-04-15T01:04:01.000Z","updated_at":"2025-06-05T20:36:29.000Z","dependencies_parsed_at":"2023-12-05T16:40:25.558Z","dependency_job_id":"5db784df-a64a-47cf-97e8-38f72619d65c","html_url":"https://github.com/Bioconductor/BiocManager","commit_stats":{"total_commits":789,"total_committers":19,"mean_commits":"41.526315789473685","dds":0.6856780735107731,"last_synced_commit":"65fa782e8fe93a7da5174b682cfcb22db7d96476"},"previous_names":[],"tags_count":25,"template":false,"template_full_name":null,"purl":"pkg:github/Bioconductor/BiocManager","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Bioconductor%2FBiocManager","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Bioconductor%2FBiocManager/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Bioconductor%2FBiocManager/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Bioconductor%2FBiocManager/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/Bioconductor","download_url":"https://codeload.github.com/Bioconductor/BiocManager/tar.gz/refs/heads/devel","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Bioconductor%2FBiocManager/sbom","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":267798625,"owners_count":24145727,"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":"2025-07-30T02:00:09.044Z","response_time":70,"last_error":null,"robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":true,"can_crawl_api":true,"host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":["core-services","cran","r-package"],"created_at":"2024-08-13T07:05:41.165Z","updated_at":"2025-07-30T02:30:47.527Z","avatar_url":"https://github.com/Bioconductor.png","language":"R","funding_links":[],"categories":["R"],"sub_categories":[],"readme":"---\noutput: github_document\n---\n\n\u003c!-- README.md is generated from README.Rmd. Please edit that file --\u003e\n\n```{r, include=FALSE}\nknitr::opts_chunk$set(\n    collapse = TRUE,\n    comment = \"#\u003e\",\n    out.width = \"100%\"\n)\n```\n\n# BiocManager \u003ca href=\"https://bioconductor.github.io/BiocManager/\"\u003e\u003cimg src=\"man/figures/BiocManager.png\" align=\"right\" height=\"138\" alt=\"BiocManager CRAN landing page\"\u003e\u003c/a\u003e\n\n\u003c!-- badges: start --\u003e\n[![CRAN status](https://www.r-pkg.org/badges/version/BiocManager)](https://cran.r-project.org/package=BiocManager)\n[![CRAN release](http://www.r-pkg.org/badges/version-last-release/BiocManager)](https://github.com/Bioconductor/BiocManager/releases)\n[![CRAN downloads](http://cranlogs.r-pkg.org/badges/BiocManager)](https://cran.r-project.org/package=BiocManager)\n\u003c!-- badges: end --\u003e\n\n## Overview\n\nThe `BiocManager` package allows users to install and manage packages\nfrom the _[Bioconductor][1]_ project, including CRAN packages that\ndepend or import Bioconductor packages. Bioconductor focuses on the\nstatistical analysis and comprehension of high-throughput genomic\ndata.\n\nCurrent _Bioconductor_ packages are available on a 'release' version intended\nfor every-day use, and a 'devel' version where new features are continually\nintroduced. A new release version is created every six months. Using the\n`BiocManager` package helps users accurately install packages from the\nappropriate release.\n\n* `available()` shows all packages associated with a search pattern\n* `install()` installs and/or updates packages either CRAN or Bioconductor\n* `repositories()` shows all package repository URL endpoints\n* `valid()` checks and returns packages that are out-of-date or too new\n* `version()` returns the current Bioconductor version number\n\n## Installation\n\n```{r, eval = FALSE}\nif (!requireNamespace(\"BiocManager\", quietly = TRUE))\n    install.packages(\"BiocManager\", repos = \"https://cran.R-project.org\")\n```\n\n## Usage\n\n### Checking Bioconductor version currently in use\n\n```{r, message=FALSE}\nBiocManager::version()\n```\n\n### Installing Bioconductor packages\n\n```{r, eval=FALSE}\nBiocManager::install(c(\"GenomicRanges\", \"SummarizedExperiment\"))\n```\n\n### Verifying a valid Bioconductor installation\n\n```{r}\nBiocManager::valid()\n```\n\n## More information\n\nPlease see the 'Get started' document (package vignette) for more\ndetailed information such as changing Bioconductor version, offline\nuse, and other advanced usage.\n\n## Getting help\n\nTo report apparent bugs, create a minimal and reproducible example on\n[GitHub][2].\n\n[1]: https://bioconductor.org\n[2]: https://github.com/Bioconductor/BiocManager/issues\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2FBioconductor%2FBiocManager","html_url":"https://awesome.ecosyste.ms/projects/github.com%2FBioconductor%2FBiocManager","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2FBioconductor%2FBiocManager/lists"}