{"id":23801902,"url":"https://github.com/bowang-lab/simatac","last_synced_at":"2025-09-06T15:32:21.877Z","repository":{"id":100015831,"uuid":"278655582","full_name":"bowang-lab/simATAC","owner":"bowang-lab","description":"A single-cell ATAC-seq simulation framework (R package)","archived":false,"fork":false,"pushed_at":"2021-01-23T18:39:53.000Z","size":20085,"stargazers_count":4,"open_issues_count":2,"forks_count":1,"subscribers_count":3,"default_branch":"master","last_synced_at":"2023-10-20T18:24:53.753Z","etag":null,"topics":["scatac-seq","simulator","software"],"latest_commit_sha":null,"homepage":"","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/bowang-lab.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":"2020-07-10T14:32:44.000Z","updated_at":"2023-01-04T16:31:11.000Z","dependencies_parsed_at":"2023-05-11T17:00:29.670Z","dependency_job_id":null,"html_url":"https://github.com/bowang-lab/simATAC","commit_stats":null,"previous_names":[],"tags_count":1,"template":null,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/bowang-lab%2FsimATAC","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/bowang-lab%2FsimATAC/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/bowang-lab%2FsimATAC/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/bowang-lab%2FsimATAC/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/bowang-lab","download_url":"https://codeload.github.com/bowang-lab/simATAC/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":232130340,"owners_count":18476788,"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":["scatac-seq","simulator","software"],"created_at":"2025-01-01T22:15:45.302Z","updated_at":"2025-01-01T22:15:45.949Z","avatar_url":"https://github.com/bowang-lab.png","language":"R","funding_links":[],"categories":[],"sub_categories":[],"readme":"# simATAC: a single-cell ATAC-seq simulation framework\n\nsimATAC is a framework provided as an R package that generates a single-cell Assay for Transposase-Accessible Chromatin sequencing (scATAC-seq) count matrix, highly resembling real scATAC-seq datasets in library size, sparsity, and averaged chromatin accessibility signals. simATAC deploys statistical functions derived from analyzing 90 real scATAC-seq cell groups to model read distributions. simATAC provides a robust and systematic approach to generate in silico scATAC-seq samples with cell labels for a comprehensive tool assessment.\n\n\n## Installation\n\nInstall simATAC R package (R \u003e= 3.5.0): \n\n```bash\n$ R\n\u003e library(devtools)\n\u003e install_github(\"bowang-lab/simATAC\")\n```\n\n## Getting started\n\n\nsimATAC tutorial provides examples and explanations of its functions and how to use them. This documentation introduces the main features of simATAC.\n* [simATAC tutorial](https://github.com/bowang-lab/simATAC/blob/master/Docs/tutorial.md)\n\n\n\n## Contact the Author\n\nReport bugs and provide suggestions by sending email to:\n\nAuthor and maintainer: Zeinab Navidi (zeinab.nvd@gmail.com)\n\nOr open a new issue on this Github page.\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fbowang-lab%2Fsimatac","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fbowang-lab%2Fsimatac","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fbowang-lab%2Fsimatac/lists"}