{"id":40145111,"url":"https://github.com/dib-lab/dammit","last_synced_at":"2026-01-19T14:36:23.526Z","repository":{"id":50952667,"uuid":"42711925","full_name":"dib-lab/dammit","owner":"dib-lab","description":"just annotate it, dammit!","archived":false,"fork":false,"pushed_at":"2023-08-22T18:53:56.000Z","size":12737,"stargazers_count":93,"open_issues_count":79,"forks_count":28,"subscribers_count":11,"default_branch":"master","last_synced_at":"2026-01-08T00:36:56.685Z","etag":null,"topics":["annotation","bioinformatics","transcriptomics"],"latest_commit_sha":null,"homepage":"http://dib-lab.github.io/dammit/","language":"Python","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"other","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/dib-lab.png","metadata":{"files":{"readme":"README.md","changelog":"ChangeLog","contributing":null,"funding":null,"license":"LICENSE","code_of_conduct":null,"threat_model":null,"audit":null,"citation":"CITATION","codeowners":null,"security":null,"support":null,"governance":null}},"created_at":"2015-09-18T09:22:12.000Z","updated_at":"2025-10-08T13:00:41.000Z","dependencies_parsed_at":"2022-08-28T14:22:26.764Z","dependency_job_id":"becf7bad-f477-4def-b1b7-e26e5c88408c","html_url":"https://github.com/dib-lab/dammit","commit_stats":null,"previous_names":["camillescott/dammit"],"tags_count":25,"template":false,"template_full_name":null,"purl":"pkg:github/dib-lab/dammit","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/dib-lab%2Fdammit","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/dib-lab%2Fdammit/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/dib-lab%2Fdammit/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/dib-lab%2Fdammit/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/dib-lab","download_url":"https://codeload.github.com/dib-lab/dammit/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/dib-lab%2Fdammit/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":286080680,"owners_count":28571856,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2026-01-19T12:50:50.164Z","status":"ssl_error","status_checked_at":"2026-01-19T12:50:42.704Z","response_time":67,"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":["annotation","bioinformatics","transcriptomics"],"created_at":"2026-01-19T14:36:23.310Z","updated_at":"2026-01-19T14:36:23.517Z","avatar_url":"https://github.com/dib-lab.png","language":"Python","funding_links":[],"categories":[],"sub_categories":[],"readme":"[![image](https://travis-ci.org/dib-lab/dammit.svg)](https://travis-ci.org/dib-lab/dammit)\n[![Documentation Status](https://readthedocs.org/projects/dammit/badge/)](http://dammit.readthedocs.io/en/latest)\n[![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.3569831.svg)](https://doi.org/10.5281/zenodo.3569831)\n\n*\"I love writing BLAST parsers!\" -- no one, ever*\n\ndammit is a simple de novo transcriptome annotator. It was born out of\nthe observation that: annotation is mundane and annoying; all the\nindividual pieces of the process exist already; and, the existing\nsolutions are overly complicated or rely on crappy non-free software.\n\nScience shouldn't suck for the sake of sucking, so dammit attempts to\nmake this sucky part of the process suck a little less.\n\n## Basic Usage\n\nInstall dammit with bioconda.\n\n    conda create -n dammit-env python=3 dammit\n    conda activate dammit-env\n\nDownload and install a subset of the databases:\n\n    dammit databases --install --quick\n\nAnd the annotate with:\n\n    dammit annotate \u003ctranscriptome_fasta\u003e\n\nHead over to the [docs](http://dib-lab.github.io/dammit/) for much more detailed\ninformation!\n\n## Acknowledgements\n\nI've received input and advice from a many sources, including but\nprobably not limited to: C Titus Brown, Matt MacManes, Chris Hamm,\nMichael Crusoe, Russell Neches, Luiz Irber, Lisa Cohen, Tessa Pierce,\nSherine Awad, and Tamer Mansour.\n\nCS was funded by the National Human Genome Research Institute of the\nNational Institutes of Health under Award Number R01HG007513 through May\n2016, and now receives support from the Gordon and Betty Moore\nFoundation under Award number GBMF4551.\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fdib-lab%2Fdammit","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fdib-lab%2Fdammit","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fdib-lab%2Fdammit/lists"}