{"id":26675339,"url":"https://github.com/krasnitzlab/cnprep","last_synced_at":"2026-04-02T02:47:48.162Z","repository":{"id":40254153,"uuid":"243858786","full_name":"KrasnitzLab/CNprep","owner":"KrasnitzLab","description":"CNprep Package - Pre-process DNA Copy Number (CN) Data for Detection of CN Events  ","archived":false,"fork":false,"pushed_at":"2022-05-19T01:55:08.000Z","size":6280,"stargazers_count":3,"open_issues_count":1,"forks_count":2,"subscribers_count":2,"default_branch":"master","last_synced_at":"2025-04-12T08:14:19.438Z","etag":null,"topics":["bootstrap","copy-number","copy-number-variation","dna-copy-number","r","r-package"],"latest_commit_sha":null,"homepage":"","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/KrasnitzLab.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":"2020-02-28T21:37:08.000Z","updated_at":"2022-05-19T01:55:13.000Z","dependencies_parsed_at":"2022-07-24T17:47:15.670Z","dependency_job_id":null,"html_url":"https://github.com/KrasnitzLab/CNprep","commit_stats":null,"previous_names":[],"tags_count":9,"template":false,"template_full_name":null,"purl":"pkg:github/KrasnitzLab/CNprep","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/KrasnitzLab%2FCNprep","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/KrasnitzLab%2FCNprep/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/KrasnitzLab%2FCNprep/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/KrasnitzLab%2FCNprep/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/KrasnitzLab","download_url":"https://codeload.github.com/KrasnitzLab/CNprep/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/KrasnitzLab%2FCNprep/sbom","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":266962164,"owners_count":24012994,"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","status":"online","status_checked_at":"2025-07-25T02:00:09.625Z","response_time":70,"last_error":null,"robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":true,"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":["bootstrap","copy-number","copy-number-variation","dna-copy-number","r","r-package"],"created_at":"2025-03-26T03:17:43.573Z","updated_at":"2026-04-02T02:47:47.671Z","avatar_url":"https://github.com/KrasnitzLab.png","language":"R","funding_links":[],"categories":[],"sub_categories":[],"readme":"[![R-CMD-check-bioc](https://github.com/adeschen/CNprep/actions/workflows/check-bioc.yml/badge.svg?branch=master)](https://github.com/adeschen/CNprep/actions/workflows/check-bioc.yml)\n[![codecov](https://codecov.io/gh/KrasnitzLab/CNprep/branch/master/graph/badge.svg)](https://codecov.io/gh/KrasnitzLab/CNprep)\n[![License: GPL v2](https://img.shields.io/badge/License-GPL%20v2-blue.svg)](https://www.gnu.org/licenses/old-licenses/gpl-2.0.en.html)\n\n# CNprep \u003ca href='https://github.com/KrasnitzLab/CNprep'\u003e\u003cimg src='vignettes/figures/CNprep.png' align=\"right\" height=\"139\" /\u003e\u003c/a\u003e\n\nA R package that evaluates DNA copy number data, using both their initial form (copy number as a noisy function of genomic position) and their approximation by a piecewise-constant function (segmentation), for the purpose of identifying genomic regions where the copy number differs from the normal state.\n\n\n## Citing ##\n\nIf you use this package for a publication, we would ask you to cite the \nfollowing:\n\n\u003e Belleau P, Deschênes A, Sun G et al. CNprep: Copy number event detection [version 1; not peer reviewed]. F1000Research 2020, 9:743 (poster) (https://doi.org/10.7490/f1000research.1118065.1)\n\n\n## Authors ##\n\nGuoli Sun, [Pascal Belleau](http://ca.linkedin.com/in/pascalbelleau \"Pascal Belleau\"), [Astrid Deschênes](http://ca.linkedin.com/in/astriddeschenes \"Astrid Deschênes\") and Alexander Krasnitz\n\n\n## Installation ##\n\nTo install the latest accessible version, the  [devtools](https://cran.r-project.org/web/packages/devtools/index.html) \npackage is required.\n\n```r\n## To install the development version from GitHub\ninstall.packages(\"devtools\")\ndevtools::install_github(\"KrasnitzLab/CNprep\")\n```\n\n## License ##\n\nThis package and the underlying *CNprep* code are distributed under \nthe GPL-2. You are free to use and redistribute this software. \n\nFor more information on GPL-2 License see\n[https://www.gnu.org/licenses/old-licenses/gpl-2.0.txt](https://www.gnu.org/licenses/old-licenses/gpl-2.0.txt)\n\n\n## Bugs/Feature requests ##\n\nIf you have any bugs or feature requests, \n[let us know](https://github.com/KrasnitzLab/CNprep/issues). \n\nThanks!\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fkrasnitzlab%2Fcnprep","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fkrasnitzlab%2Fcnprep","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fkrasnitzlab%2Fcnprep/lists"}