{"id":20798255,"url":"https://github.com/mehelmy/pileup_consensus","last_synced_at":"2025-07-17T16:04:42.834Z","repository":{"id":90784539,"uuid":"194168960","full_name":"MeHelmy/pileup_consensus","owner":"MeHelmy","description":"Script that takes samtools pileup output and write consensus fasta file as output.","archived":false,"fork":false,"pushed_at":"2020-04-23T08:05:05.000Z","size":17,"stargazers_count":4,"open_issues_count":0,"forks_count":1,"subscribers_count":1,"default_branch":"master","last_synced_at":"2025-04-09T19:49:30.141Z","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":"mit","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/MeHelmy.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":"2019-06-27T22:05:07.000Z","updated_at":"2023-11-13T17:16:44.000Z","dependencies_parsed_at":"2023-03-13T17:54:12.506Z","dependency_job_id":null,"html_url":"https://github.com/MeHelmy/pileup_consensus","commit_stats":null,"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/MeHelmy/pileup_consensus","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MeHelmy%2Fpileup_consensus","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MeHelmy%2Fpileup_consensus/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MeHelmy%2Fpileup_consensus/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MeHelmy%2Fpileup_consensus/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/MeHelmy","download_url":"https://codeload.github.com/MeHelmy/pileup_consensus/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MeHelmy%2Fpileup_consensus/sbom","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":265625587,"owners_count":23800625,"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":"2024-11-17T16:44:00.551Z","updated_at":"2025-07-17T16:04:42.817Z","avatar_url":"https://github.com/MeHelmy.png","language":"Python","funding_links":[],"categories":[],"sub_categories":[],"readme":"# pileup consensus\n~~~\nScript takes samtools pileup output and write consensus fasta file as output.\n\nusage: pileup_consensus.py [-h] [-v] [-n BASE] [-r READS] [input] [output]\n\nProduce consensus fatsa from samtools pileup output\n\npositional arguments:\n  input                 pileup file \n  output                Output file if no file result will be directed to\n                        stander output\n\noptional arguments:\n  -h, --help            show this help message and exit\n  -v, --version         show program's version number and exit\n  -n BASE, --base BASE  Number of bases in line. (default: 80)\n  -r READS, --reads READS\n                        Minimum number of reads to accept nucleotide as a\n                        variant. (default: 2)\n\npileup_consensus.py version 0.01. use command -h for info.\n~~~\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fmehelmy%2Fpileup_consensus","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fmehelmy%2Fpileup_consensus","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fmehelmy%2Fpileup_consensus/lists"}