{"id":16618758,"url":"https://github.com/stuntspt/4pipe4_to_genotyping_array","last_synced_at":"2026-04-22T19:35:55.862Z","repository":{"id":8459755,"uuid":"10056322","full_name":"StuntsPT/4Pipe4_to_genotyping_array","owner":"StuntsPT","description":"A script to convert 4Pipe4 SNP output to a genotyping array in FASTA format","archived":false,"fork":false,"pushed_at":"2013-05-14T14:05:17.000Z","size":120,"stargazers_count":0,"open_issues_count":0,"forks_count":0,"subscribers_count":2,"default_branch":"master","last_synced_at":"2025-03-11T05:45:05.927Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"language":"Python","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/StuntsPT.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}},"created_at":"2013-05-14T13:59:44.000Z","updated_at":"2013-10-05T04:40:21.000Z","dependencies_parsed_at":"2022-09-14T08:20:55.858Z","dependency_job_id":null,"html_url":"https://github.com/StuntsPT/4Pipe4_to_genotyping_array","commit_stats":null,"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/StuntsPT/4Pipe4_to_genotyping_array","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/StuntsPT%2F4Pipe4_to_genotyping_array","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/StuntsPT%2F4Pipe4_to_genotyping_array/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/StuntsPT%2F4Pipe4_to_genotyping_array/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/StuntsPT%2F4Pipe4_to_genotyping_array/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/StuntsPT","download_url":"https://codeload.github.com/StuntsPT/4Pipe4_to_genotyping_array/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/StuntsPT%2F4Pipe4_to_genotyping_array/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":286080680,"owners_count":32152605,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2026-04-22T17:06:48.269Z","status":"ssl_error","status_checked_at":"2026-04-22T17:06:19.037Z","response_time":58,"last_error":"SSL_connect returned=1 errno=0 peeraddr=140.82.121.5:443 state=error: 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":"2024-10-12T02:21:26.200Z","updated_at":"2026-04-22T19:35:55.793Z","avatar_url":"https://github.com/StuntsPT.png","language":"Python","funding_links":[],"categories":[],"sub_categories":[],"readme":"#4Pipe4_to_sequenom\n\n###This program will transform a sorted and indexed bam file, plus a FASTA file generated by 4Pipe4 into SNPs and their flanking regions ready for a sequenom Mass Array (c).\n\n###Usage:\n\n    python2 4Pipe4_to_sequenom.py infile.bam infile.fasta variation_treshold(float: 0-1) max_variations(int)\n\nThe \"infile.bam.bai\" has to be in the same directory as the \"infile.bam\".\n\n###Requirements:\n\n* Python 2.x (tested with 2.7)\n* pysam (code.google.com/p/pysam/‎)\n\n###License:\nGPLv3.","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fstuntspt%2F4pipe4_to_genotyping_array","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fstuntspt%2F4pipe4_to_genotyping_array","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fstuntspt%2F4pipe4_to_genotyping_array/lists"}