{"id":13858063,"url":"https://github.com/lazappi/clustree","last_synced_at":"2025-04-05T02:08:38.628Z","repository":{"id":39619919,"uuid":"118405191","full_name":"lazappi/clustree","owner":"lazappi","description":"Visualise Clusterings at Different Resolutions","archived":false,"fork":false,"pushed_at":"2023-11-08T09:30:46.000Z","size":38658,"stargazers_count":221,"open_issues_count":11,"forks_count":15,"subscribers_count":5,"default_branch":"main","last_synced_at":"2025-03-29T01:06:58.336Z","etag":null,"topics":["clustering","clustering-trees","cran","visualisation","visualization"],"latest_commit_sha":null,"homepage":"https://lazappi.github.io/clustree/","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/lazappi.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,"governance":null}},"created_at":"2018-01-22T04:16:14.000Z","updated_at":"2025-03-16T14:55:48.000Z","dependencies_parsed_at":"2022-07-13T09:10:32.468Z","dependency_job_id":"661b53a5-a20a-4138-9c7f-0a32c941605d","html_url":"https://github.com/lazappi/clustree","commit_stats":{"total_commits":231,"total_committers":5,"mean_commits":46.2,"dds":"0.017316017316017285","last_synced_commit":"24900bdf459c29812c716ba9f889c58685f957ed"},"previous_names":[],"tags_count":14,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/lazappi%2Fclustree","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/lazappi%2Fclustree/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/lazappi%2Fclustree/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/lazappi%2Fclustree/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/lazappi","download_url":"https://codeload.github.com/lazappi/clustree/tar.gz/refs/heads/main","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":247276164,"owners_count":20912288,"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":["clustering","clustering-trees","cran","visualisation","visualization"],"created_at":"2024-08-05T03:01:55.541Z","updated_at":"2025-04-05T02:08:38.606Z","avatar_url":"https://github.com/lazappi.png","language":"R","funding_links":[],"categories":["R"],"sub_categories":[],"readme":"clustree \u003cimg src=\"man/figures/logo.png\" align=\"right\" /\u003e\n=======================================================\n\n[![Project Status](https://www.repostatus.org/badges/latest/active.svg)](https://www.repostatus.org/#active)\n[![Lifecycle: stable](https://img.shields.io/badge/lifecycle-stable-brightgreen.svg)](https://lifecycle.r-lib.org/articles/stages.html)\n[![R-CMD-check](https://github.com/lazappi/clustree/workflows/R-CMD-check/badge.svg)](https://github.com/lazappi/clustree/actions)\n[![Coverage Status](https://img.shields.io/codecov/c/github/lazappi/clustree/master.svg)](https://app.codecov.io/github/lazappi/clustree?branch=master)\n[![CodeFactor](https://www.codefactor.io/repository/github/lazappi/clustree/badge)](https://www.codefactor.io/repository/github/lazappi/clustree)\n[![CRAN Status](http://www.r-pkg.org/badges/version/clustree)](https://cran.r-project.org/package=clustree)\n[![CRAN Monthly Downloads](https://cranlogs.r-pkg.org/badges/clustree)](https://cran.r-project.org/package=clustree)\n![CRAN Downloads](http://cranlogs.r-pkg.org/badges/grand-total/clustree)\n\nDeciding what resolution to use can be a difficult question when approaching a\nclustering analysis. One way to approach this problem is to look at how samples\nmove as the number of clusters increases. This package allows you to produce\nclustering trees, a visualisation for interrogating clusterings as resolution \nincreases.\n\n## Installation\n\nYou can install the release version of _clustree_ from CRAN with:\n\n``` r\ninstall.packages(\"clustree\")\n```\n\nIf you want to use the development version that can be installed from GitHub\nusing the `remotes` package:\n\n``` r\n# install.packages(\"remotes\")\nremotes::install_github(\"lazappi/clustree@develop\")\n```\n\nTo also build the vignettes use:\n\n``` r\n# install.packages(\"remotes\")\nremotes::install_github(\"lazappi/clustree@develop\", dependencies = TRUE,\n                         build_vignettes = TRUE)\n```\n\n**NOTE:** Building the vignettes requires the installation of additional\npackages.\n\n## Documentation\n\nThe documentation for _clustree_ is available from CRAN at \nhttps://cran.r-project.org/package=clustree.\n\nTo view the vignette and all the package documentation for the development\nversion visit http://lazappi.github.io/clustree.\n\n## Citing _clustree_\n\nIf you use _clustree_ or the clustering trees approach in your work please cite\nour publication [\"Zappia L, Oshlack A. Clustering trees: a visualization for \nevaluating clusterings at multiple resolutions. Gigascience. 2018;7. \nDOI:gigascience/giy083][paper].\n\n```\ncitation(\"clustree\")\n \n   Zappia L, Oshlack A. Clustering trees: a visualization for\n   evaluating clusterings at multiple resolutions. GigaScience.\n   2018;7. DOI:gigascience/giy083\n \nA BibTeX entry for LaTeX users is\n \n   @Article{,\n     author = {Luke Zappia and Alicia Oshlack},\n     title = {Clustering trees: a visualization for evaluating clusterings at\n              multiple resolutions},\n     journal = {GigaScience},\n     volume = {7},\n     number = {7},\n     month = {jul},\n     year = {2018},\n     url = {http://dx.doi.org/10.1093/gigascience/giy083},\n     doi = {10.1093/gigascience/giy083},\n   }\n```\n\n## Contributors\n\nThank you to everyone who has contributed code to the clustree package:\n\n* [@andreamrau](https://github.com/andreamrau) - added the `edge_arrow_ends`\n  option\n* [@mojaveazure](https://github.com/mojaveazure) - added support for _Seurat_\n  v3 objects\n\n[paper]: https://doi.org/10.1093/gigascience/giy083\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Flazappi%2Fclustree","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Flazappi%2Fclustree","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Flazappi%2Fclustree/lists"}