{"id":19434485,"url":"https://github.com/mlin/rseqc","last_synced_at":"2025-04-24T20:32:08.013Z","repository":{"id":10676723,"uuid":"12913930","full_name":"mlin/rseqc","owner":"mlin","description":"RNA-Seq Quality Control: Generates QC metrics for RNA-Seq data using the RSeQC suite; a graphical report of these metrics can be viewed on the DNAnexus website","archived":false,"fork":false,"pushed_at":"2013-09-18T05:56:56.000Z","size":2140,"stargazers_count":0,"open_issues_count":0,"forks_count":10,"subscribers_count":1,"default_branch":"master","last_synced_at":"2025-04-03T10:37:51.395Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":"https://platform.dnanexus.com/app/rseqc","language":"C","has_issues":false,"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/mlin.png","metadata":{"files":{"readme":"Readme.md","changelog":null,"contributing":null,"funding":null,"license":"COPYING","code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null}},"created_at":"2013-09-18T04:17:43.000Z","updated_at":"2023-08-05T14:38:04.000Z","dependencies_parsed_at":"2022-09-09T17:11:32.314Z","dependency_job_id":null,"html_url":"https://github.com/mlin/rseqc","commit_stats":null,"previous_names":[],"tags_count":1,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/mlin%2Frseqc","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/mlin%2Frseqc/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/mlin%2Frseqc/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/mlin%2Frseqc/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/mlin","download_url":"https://codeload.github.com/mlin/rseqc/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":250704830,"owners_count":21473769,"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":"2024-11-10T14:46:35.417Z","updated_at":"2025-04-24T20:32:07.298Z","avatar_url":"https://github.com/mlin.png","language":"C","funding_links":[],"categories":[],"sub_categories":[],"readme":"This app implements selected packages from the [RSeQC\nsuite](http://code.google.com/p/rseqc/wiki/Manual). These are:\n\n* geneBody_coverage\n* inner_distance\n* junction_annotation\n* read_distribution\n* read_duplication\n\nThe app requires as input RNA-Seq mappings and a BED file describing the\ngene model used for or derived from these mappings.\n\nOptionally, the user may estimate the amounts of different contaminants in\nthe sample. This is done by suppling sequences through the \"contaminants\"\ninput, which takes any number of [ContigSet\nobjects](http://wiki.dnanexus.com/Types/ContigSet). FASTA files may be\nimported into ContigSet objects using the **Genome Importer** app.\n\nOne or more [Reads objects](http://wiki.dnanexus.com/Types/Reads) MUST also\nbe given if contaminants are given. The reads will be matched against each\ncontaminant using the BWA app and the percent mapping will be stored.\n\nThe output is a set of charts in a report that can be viewed by selecting\nthe report object in the data browser.\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fmlin%2Frseqc","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fmlin%2Frseqc","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fmlin%2Frseqc/lists"}