{"id":28962206,"url":"https://github.com/enblacar/scpubr","last_synced_at":"2025-06-24T03:02:00.499Z","repository":{"id":37236857,"uuid":"440490498","full_name":"enblacar/SCpubr","owner":"enblacar","description":"Generate high quality, publication ready visualizations for single cell transcriptomics data.","archived":false,"fork":false,"pushed_at":"2025-05-25T19:09:32.000Z","size":92470,"stargazers_count":198,"open_issues_count":2,"forks_count":13,"subscribers_count":4,"default_branch":"main","last_synced_at":"2025-06-24T03:01:52.445Z","etag":null,"topics":["data-visualization","ggplot2","publication-quality-plots","r","rstats","seurat","single-cell","single-cell-genomics","single-cell-rna-seq","visualization"],"latest_commit_sha":null,"homepage":"https://enblacar.github.io/SCpubr-book/","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/enblacar.png","metadata":{"files":{"readme":"README.md","changelog":"NEWS.md","contributing":null,"funding":null,"license":"LICENSE.md","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":"2021-12-21T11:17:33.000Z","updated_at":"2025-06-18T13:57:01.000Z","dependencies_parsed_at":"2025-02-01T20:25:06.129Z","dependency_job_id":"3086cef9-72b8-4b13-992c-c7c22b35fe0c","html_url":"https://github.com/enblacar/SCpubr","commit_stats":null,"previous_names":[],"tags_count":24,"template":false,"template_full_name":null,"purl":"pkg:github/enblacar/SCpubr","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/enblacar%2FSCpubr","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/enblacar%2FSCpubr/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/enblacar%2FSCpubr/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/enblacar%2FSCpubr/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/enblacar","download_url":"https://codeload.github.com/enblacar/SCpubr/tar.gz/refs/heads/main","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/enblacar%2FSCpubr/sbom","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":261595647,"owners_count":23182240,"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"}},"keywords":["data-visualization","ggplot2","publication-quality-plots","r","rstats","seurat","single-cell","single-cell-genomics","single-cell-rna-seq","visualization"],"created_at":"2025-06-24T03:01:23.185Z","updated_at":"2025-06-24T03:02:00.469Z","avatar_url":"https://github.com/enblacar.png","language":"R","funding_links":[],"categories":[],"sub_categories":[],"readme":"# SCpubr \u003ca href=\"https://github.com/enblacar/SCpubr\"\u003e\u003cimg src=\"man/figures/SCpubr_Logo512.png\" align=\"right\" height=\"200\" width=\"200\"/\u003e\u003c/a\u003e\n\u003c!-- badges: start --\u003e\n[![CRAN status](https://www.r-pkg.org/badges/version/SCpubr)](https://CRAN.R-project.org/package=SCpubr)\n[![R-CMD-check](https://github.com/enblacar/SCpubr/actions/workflows/R-CMD-check.yaml/badge.svg)](https://github.com/enblacar/SCpubr/actions/workflows/R-CMD-check.yaml)\n[![Code Coverage](https://codecov.io/gh/enblacar/SCpubr/branch/main/graph/badge.svg?token=HK7JB08VFD)](https://app.codecov.io/gh/enblacar/SCpubr/)\n[![CodeFactor](https://www.codefactor.io/repository/github/enblacar/scpubr/badge/main)](https://www.codefactor.io/repository/github/enblacar/scpubr/overview/main)\n[![metacran downloads](https://cranlogs.r-pkg.org/badges/grand-total/SCpubr)](https://cran.r-project.org/package=SCpubr)\n\u003c!-- badges: end --\u003e\n\n\nThis package aims to provide a streamlined way of generating publication ready plots for known **S**ingle-**C**ell visualizations in a \"**pub**lication **r**eady\" format (**SCpubr**). This is, the aim is to automatically generate plots with the highest quality possible, that can be used right away or with minimal modifications for a research article. \n\n## Installation\n\n**SCpubr** can be installed via:\n\n```r\n# From CRAN - Official release:\ninstall.packages(\"SCpubr\")\n\n# From GitHub - Latest stable development version:\nif(!requireNamespace(\"devtools\", quietly = TRUE)){\n  install.packages(\"devtools\") # If not installed.\n}\n\ndevtools::install_github(\"enblacar/SCpubr\", ref = \"v2.0.0-dev-stable\")\n```\n\nBy default, **SCpubr** downloads without installing any of the required dependencies. A comprehensive report of which dependencies are still missing and which functions can be run is available through:\n\n```r\nSCpubr::package_report(extended = TRUE)\n```\n\nFor tutorials, check **SCpubr**'s [reference manual](https://enblacar.github.io/SCpubr-book/).\n\n\n## Updates\n`SCpubr` is an active package currently aiming to improve and add new functionalities.\n\nKeep track of our new updates in the [NEWS page](https://github.com/enblacar/SCpubr/blob/master/NEWS.md)!\n\n## Citation\nTo cite `SCpubr` in your publications, please use: \n\n```\nBlanco-Carmona, E. Generating publication ready visualizations \nfor Single Cell transcriptomics using SCpubr. bioRxiv (2022) \ndoi:10.1101/2022.02.28.482303.\n```\n\n## Contact\n`scpubr@gmail.com`\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fenblacar%2Fscpubr","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fenblacar%2Fscpubr","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fenblacar%2Fscpubr/lists"}