{"id":38545155,"url":"https://github.com/fertiglab/ataccogaps","last_synced_at":"2026-01-17T07:18:06.877Z","repository":{"id":41136637,"uuid":"213665688","full_name":"FertigLab/ATACCoGAPS","owner":"FertigLab","description":null,"archived":false,"fork":false,"pushed_at":"2024-10-22T20:25:06.000Z","size":80906,"stargazers_count":4,"open_issues_count":0,"forks_count":1,"subscribers_count":3,"default_branch":"master","last_synced_at":"2025-10-25T14:09:52.784Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"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/FertigLab.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":null,"code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null}},"created_at":"2019-10-08T14:28:58.000Z","updated_at":"2024-10-22T20:25:09.000Z","dependencies_parsed_at":"2023-02-14T23:15:40.884Z","dependency_job_id":null,"html_url":"https://github.com/FertigLab/ATACCoGAPS","commit_stats":null,"previous_names":[],"tags_count":1,"template":false,"template_full_name":null,"purl":"pkg:github/FertigLab/ATACCoGAPS","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/FertigLab%2FATACCoGAPS","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/FertigLab%2FATACCoGAPS/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/FertigLab%2FATACCoGAPS/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/FertigLab%2FATACCoGAPS/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/FertigLab","download_url":"https://codeload.github.com/FertigLab/ATACCoGAPS/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/FertigLab%2FATACCoGAPS/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":286080680,"owners_count":28503439,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2026-01-17T06:57:29.758Z","status":"ssl_error","status_checked_at":"2026-01-17T06:56:03.931Z","response_time":85,"last_error":"SSL_read: unexpected eof while reading","robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":false,"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":[],"created_at":"2026-01-17T07:18:06.804Z","updated_at":"2026-01-17T07:18:06.868Z","avatar_url":"https://github.com/FertigLab.png","language":"R","funding_links":[],"categories":[],"sub_categories":[],"readme":"# ATACCoGAPS\n\nPackage which provides tools for processing and analysis of single-cell ATAC-seq data with the Bayesian Non-Negative Matrix Factorization algorithm, CoGAPS, as described in our Nucleic Acids Research paper https://doi.org/10.1093/nar/gkaa349.\n\n\nInstall ATACCoGAPS with:\n\n```\nif (!require(\"BiocManager\", quietly = TRUE))\n    install.packages(\"BiocManager\")\nBiocManager::install(\"ATACCoGAPS\")\n```\n\nA tutorial demonstrating the standard analysis pipeline for ATACCoGAPS using data from Schep et al, 2017 can be found here: https://rossinerbe.github.io/ATACCoGAPS_Tutorial\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Ffertiglab%2Fataccogaps","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Ffertiglab%2Fataccogaps","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Ffertiglab%2Fataccogaps/lists"}