{"id":13751652,"url":"https://github.com/broadinstitute/infercnv","last_synced_at":"2026-02-19T13:32:55.519Z","repository":{"id":38010583,"uuid":"53894616","full_name":"broadinstitute/infercnv","owner":"broadinstitute","description":"Inferring CNV from Single-Cell RNA-Seq","archived":false,"fork":false,"pushed_at":"2025-02-01T21:53:41.000Z","size":23658,"stargazers_count":607,"open_issues_count":225,"forks_count":170,"subscribers_count":38,"default_branch":"master","last_synced_at":"2025-05-03T07:18:52.024Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":"","language":"R","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"other","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/broadinstitute.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,"roadmap":null,"authors":null,"dei":null}},"created_at":"2016-03-14T21:53:54.000Z","updated_at":"2025-04-27T08:38:08.000Z","dependencies_parsed_at":"2022-07-12T00:01:41.596Z","dependency_job_id":"ef284eb5-02d0-47a9-b19b-bcd70f7469ab","html_url":"https://github.com/broadinstitute/infercnv","commit_stats":{"total_commits":1039,"total_committers":23,"mean_commits":45.17391304347826,"dds":0.6410009624639076,"last_synced_commit":"f1077335300ae2f6f90cc63f4b74d2579f3a5d29"},"previous_names":[],"tags_count":9,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/broadinstitute%2Finfercnv","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/broadinstitute%2Finfercnv/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/broadinstitute%2Finfercnv/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/broadinstitute%2Finfercnv/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/broadinstitute","download_url":"https://codeload.github.com/broadinstitute/infercnv/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":253303027,"owners_count":21886873,"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":[],"created_at":"2024-08-03T09:00:51.042Z","updated_at":"2026-02-19T13:32:55.513Z","avatar_url":"https://github.com/broadinstitute.png","language":"R","funding_links":[],"categories":["Ranked by starred repositories"],"sub_categories":[],"readme":"\n***********************************************\n\u003eInferCNV is no longer supported. Please explore alternatives such as InferCNA (https://jlaffy.github.io/infercna/)[https://jlaffy.github.io/infercna/], CopyKAT (https://github.com/navinlabcode/copykat)[https://github.com/navinlabcode/copykat], and Numbat (https://github.com/kharchenkolab/numbat)[https://github.com/kharchenkolab/numbat]\n***********************************************\n\n# Subclustering\n\nSubclustering resolution is one of the primary settings that will need to be adjusted in most runs to avoid oversplitting. The tutorial below explains how it works and details about it can also be found on the [wiki](https://github.com/broadinstitute/infercnv/wiki/infercnv-tumor-subclusters#tumor-subclustering-by-leiden-clustering-preferred).\n\n# Documentation\n### Full documentation\n\nVisit project [wiki](https://github.com/broadinstitute/inferCNV/wiki) for InferCNV documentation.\n\n\n### Infercnv video tutorial\n\nA **video** tutorial giving on overview of infercnv features and how to run an analysis can be found below **(click on the image)**:\n\n[![Tutorial: Running infercnv](http://img.youtube.com/vi/-qOcHAavZT8/0.jpg)](http://www.youtube.com/watch?v=-qOcHAavZT8 \"Tutorial: Running infercnv\")\n\n\n\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fbroadinstitute%2Finfercnv","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fbroadinstitute%2Finfercnv","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fbroadinstitute%2Finfercnv/lists"}