{"id":13703322,"url":"https://github.com/bioperl/bioperl-live","last_synced_at":"2025-04-12T20:46:45.529Z","repository":{"id":905532,"uuid":"663083","full_name":"bioperl/bioperl-live","owner":"bioperl","description":"Core BioPerl 1.x code","archived":false,"fork":false,"pushed_at":"2025-04-03T14:41:43.000Z","size":136203,"stargazers_count":306,"open_issues_count":54,"forks_count":184,"subscribers_count":52,"default_branch":"master","last_synced_at":"2025-04-04T00:10:01.639Z","etag":null,"topics":["bioinformatics","bioperl","perl","toolkit"],"latest_commit_sha":null,"homepage":"http://bioperl.org","language":"Perl","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/bioperl.png","metadata":{"files":{"readme":"README.md","changelog":"Changes","contributing":null,"funding":null,"license":null,"code_of_conduct":"CODE_OF_CONDUCT.md","threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":"AUTHORS","dei":null,"publiccode":null,"codemeta":null}},"created_at":"2010-05-12T17:13:10.000Z","updated_at":"2025-04-03T14:41:47.000Z","dependencies_parsed_at":"2024-06-18T14:19:30.936Z","dependency_job_id":null,"html_url":"https://github.com/bioperl/bioperl-live","commit_stats":{"total_commits":13551,"total_committers":216,"mean_commits":"62.736111111111114","dds":0.786584015939783,"last_synced_commit":"9ce0d304f42ef3a6808e7e94be42cb56bb51068d"},"previous_names":[],"tags_count":96,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/bioperl%2Fbioperl-live","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/bioperl%2Fbioperl-live/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/bioperl%2Fbioperl-live/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/bioperl%2Fbioperl-live/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/bioperl","download_url":"https://codeload.github.com/bioperl/bioperl-live/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":248631713,"owners_count":21136559,"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":["bioinformatics","bioperl","perl","toolkit"],"created_at":"2024-08-02T21:00:53.403Z","updated_at":"2025-04-12T20:46:45.489Z","avatar_url":"https://github.com/bioperl.png","language":"Perl","funding_links":[],"categories":["Package suites"],"sub_categories":[],"readme":"[![DOI](https://zenodo.org/badge/doi/10.5281/zenodo.16344.svg)](http://dx.doi.org/10.5281/zenodo.16344)\n[![Build Status](https://github.com/bioperl/bioperl-live/actions/workflows/ci.yml/badge.svg)](https://github.com/bioperl/bioperl-live/actions/workflows/ci.yml)\n[![Coverage Status](https://coveralls.io/repos/bioperl/bioperl-live/badge.svg?branch=master)](https://coveralls.io/r/bioperl/bioperl-live?branch=master)\n[![Documentation Status](https://readthedocs.org/projects/bioperl/badge/?version=latest)](https://readthedocs.org/projects/bioperl/?badge=latest)\n\n# About BioPerl\n\nBioPerl is a project for development of free and open source Perl\ntools for computational molecular biology.  For example, it includes\nclasses for biological sequences, readers of multiple formats,\nsequence alignments, database searching objects, and interfaces to\nmultiple programs such as EMBOSS, ClustalW, and BLAST.\n\nThe BioPerl project has developed multiple module distributions for\ndifferent purposes.  The one named BioPerl (named after the project)\nprovides the foundation for all others distributions.\n\nThis is the repository for the BioPerl distribution only.  Other\ndistributions have [their own\nrepositories](https://github.com/bioperl/).\n\n# Installation\n\nThe BioPerl distribution and BioPerl project have the same name.  The\nBioPerl distribution includes only a subset of the project modules.\nBecause of this, the meaning of \"installing BioPerl\" is rarely clear.\nInstead of \"install BioPerl\", the aim must be \"install module X\".\n\n[CPAN.org](https://www.cpan.org/modules/INSTALL.html) provides an\noverview on how to install and manage Perl modules but the bottom-line\nis:\n\n1. figure out the modules you need, for example `Bio::DB::EUtilities`\n   (this is typically the modules that are `use` in your code)\n2. install them with `cpanm`, for example `cpanm Bio::DB::EUtilities`\n\nAlternatively, some Linux distributions have packaged BioPerl and have\nit available through their package manager.\n\n# Documentation and Support\n\nDocumentation for individual modules is in POD and can also be read\nonline at [metacpan](https://metacpan.org/pod/BioPerl).  Useful\ndocumentation in the form of example code can also be found in the\n`examples/` and `bin/` directories.\n\nAdditional resources and information about the project is available on\nthe [project website](https://bioperl.org), with discussion happening\non the [bioperl-l@bioperl.org](mailto:bioperl-l@bioperl.org) mailing\nlist, and on the `#bioperl` channel of the freenode IRC server.\n\nBug reports are handle on the distribution github page.\n\n# Development\n\nSee the [`HACKING.md`](HACKING.md) file for details on the project\nstructure, such as building from source and running the test suite.\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fbioperl%2Fbioperl-live","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fbioperl%2Fbioperl-live","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fbioperl%2Fbioperl-live/lists"}