{"id":14974095,"url":"https://github.com/intermine/intermine","last_synced_at":"2025-05-16T05:06:16.474Z","repository":{"id":3780976,"uuid":"4858466","full_name":"intermine/intermine","owner":"intermine","description":"A powerful open source data warehouse system","archived":false,"fork":false,"pushed_at":"2023-12-03T01:10:28.000Z","size":666553,"stargazers_count":258,"open_issues_count":221,"forks_count":349,"subscribers_count":17,"default_branch":"dev","last_synced_at":"2025-04-08T15:06:50.512Z","etag":null,"topics":["api","bioinformatics","biology","clojure","clojurescript","data-visualisation","data-visualization","data-warehouse","genetics","genomics","java","lgplv3","open-source","opensource","perl","postgresql","python","tomcat","tomcat8","webservices"],"latest_commit_sha":null,"homepage":"http://intermine.org","language":"Java","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/intermine.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":"CONTRIBUTING.md","funding":null,"license":"LICENSE","code_of_conduct":"CODE-OF-CONDUCT.md","threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":"SUPPORT.md","governance":null,"roadmap":null,"authors":null}},"created_at":"2012-07-02T10:25:18.000Z","updated_at":"2025-04-02T05:08:26.000Z","dependencies_parsed_at":"2023-12-26T08:46:15.521Z","dependency_job_id":"57c8c938-3519-4d79-998d-fc8c5d221056","html_url":"https://github.com/intermine/intermine","commit_stats":{"total_commits":33456,"total_committers":81,"mean_commits":413.037037037037,"dds":0.7704148732663797,"last_synced_commit":"fdf3df8dbe05516c617dfa1e69af4f3a7de99a0e"},"previous_names":[],"tags_count":121,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/intermine%2Fintermine","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/intermine%2Fintermine/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/intermine%2Fintermine/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/intermine%2Fintermine/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/intermine","download_url":"https://codeload.github.com/intermine/intermine/tar.gz/refs/heads/dev","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":254471061,"owners_count":22076585,"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":["api","bioinformatics","biology","clojure","clojurescript","data-visualisation","data-visualization","data-warehouse","genetics","genomics","java","lgplv3","open-source","opensource","perl","postgresql","python","tomcat","tomcat8","webservices"],"created_at":"2024-09-24T13:49:56.892Z","updated_at":"2025-05-16T05:06:11.464Z","avatar_url":"https://github.com/intermine.png","language":"Java","funding_links":[],"categories":[],"sub_categories":[],"readme":"InterMine\n============\n\nMaster: [![InterMine CI](https://github.com/intermine/intermine/workflows/InterMine%20CI/badge.svg?branch=master)](https://github.com/intermine/intermine/actions?query=workflow%3A%22InterMine+CI%22)\nDev: [![InterMine CI](https://github.com/intermine/intermine/workflows/InterMine%20CI/badge.svg?branch=dev)](https://github.com/intermine/intermine/actions?query=workflow%3A%22InterMine+CI%22)\n[![Version](http://img.shields.io/badge/version-5.1.0-blue.svg?style=flat)](https://github.com/intermine/intermine/releases)\n[![License](http://img.shields.io/badge/license-LGPL_2.1-blue.svg?style=flat)](https://github.com/intermine/intermine/blob/master/LICENSE)\n[![Research software impact](http://depsy.org/api/package/pypi/intermine/badge.svg)](http://depsy.org/package/python/intermine)\n[![Conda](https://anaconda.org/anaconda/conda-build/badges/installer/conda.svg)](https://anaconda.org/bioconda/intermine)\n[![Documentation Status](https://readthedocs.org/projects/intermine/badge/?version=latest)](https://intermine.readthedocs.io/en/latest/?badge=latest)\nf\nA powerful open source data warehouse system. InterMine allows users\nto integrate diverse data sources with a minimum of effort, providing\npowerful web-services and an elegant web-application with minimal\nconfiguration. InterMine powers some of the largest data-warehouses in\nthe life sciences, including:\n  * [FlyMine](https://www.flymine.org)\n  * [HumanMine](https://www.humanmine.org)\n  * [MouseMine](http://www.mousemine.org)\n  * [YeastMine](https://yeastmine.yeastgenome.org)\n  * [ZebrafishMine](http://zebrafishmine.org)\n  * [RatMine](http://ratmine.mcw.edu/ratmine/begin.do)\n  * [TargetMine](http://targetmine.mizuguchilab.org/)\n  * [ThaleMine](https://apps.araport.org/thalemine)\n  * [PhytoMine](https://phytozome.jgi.doe.gov/phytomine)\n\nFor the full list of InterMines, please see the [registry](http://registry.intermine.org)\n\nFor details, please visit: [InterMine Documentation][readthedocs]\n\nIf you run an InterMine, or use one in your research, in order to improve the chance of continued funding for the\nproject it would be appreciated if groups that use InterMine or parts of InterMine would let us know.\n\nGetting Started With InterMine\n-------------------------------\n\nFor a guide on getting started with InterMine, please visit:\n[tutorial][tutorial]\n\n3min bootstrap\n--------------------------------------\n\nAs long as you have the prerequisites installed ([Java][java], [PostgreSQL][psql]), you can get a working data-warehouse and associated web-application by running an automated bootstrap script:\n\n```bash\n  # For the testmodel\n./testmine/setup.sh\n```\nFor a genomic application, with test data from Malaria, see [BioTestMine](https://github.com/intermine/biotestmine)\n\n\nDocker\n--------------------------------------\nYou can build InterMine using Docker. See https://github.com/intermine/docker-intermine-gradle\n\nCopyright and Licence\n------------------------\n\nCopyright (C) 2002-2022 FlyMine\n\nSee [LICENSE](LICENSE) file for licensing information.\n\nThis product includes software developed by the\n[Apache Software Foundation][apache]\n\nInterMine Development Roadmap\n-----------------------------\n\nFor more information about the upcoming releases, please visit the [InterMine Development Roadmap](http://intermine.org/im-docs/docs/intermine/roadmap/). For the roadmap, please see [here](https://github.com/intermine/intermine/projects/7).\n\nPlease cite\n------------------------\n\n**InterMine: extensive web services for modern biology.**\u003cbr/\u003e\n*Kalderimis A, Lyne R, Butano D, Contrino S, Lyne M, Heimbach J, Hu F, Smith R,\nStěpán R, Sullivan J, Micklem G.* \u003cbr/\u003e\n[Nucleic Acids Res. 2014 Jul; 42 (Web Server issue): W468-72](https://academic.oup.com/nar/article/42/W1/W468/2435235) \u003cbr/\u003e\n[![doi](http://img.shields.io/badge/doi-10.1093%2Fnar%2Fgku301-blue.svg?style=flat)](https://academic.oup.com/nar/article/42/W1/W468/2435235) \n[![pubmed](http://img.shields.io/badge/pubmed-24753429-blue.svg?style=flat)](http://www.ncbi.nlm.nih.gov/pubmed/24753429)\n\n**InterMine: a flexible data warehouse system for the integration and analysis of heterogeneous biological data.**\u003cbr/\u003e\n*Smith RN, Aleksic J, Butano D, Carr A, Contrino S, Hu F, Lyne M, Lyne R, Kalderimis A, Rutherford K, Stepan R, Sullivan J, Wakeling M, Watkins X, Micklem G.* \u003cbr/\u003e\n[Bioinformatics (2012) 28 (23): 3163-3165.](http://bioinformatics.oxfordjournals.org/content/28/23/3163.abstract) \u003cbr/\u003e\n[![doi](http://img.shields.io/badge/doi-10.1093%2Fbioinformatics%2Fbts577-blue.svg?style=flat)](http://bioinformatics.oxfordjournals.org/content/28/23/3163.abstract) \n[![pubmed](http://img.shields.io/badge/pubmed-23023984-blue.svg?style=flat)](http://www.ncbi.nlm.nih.gov/pubmed/23023984)\n\nSee [zotero](https://www.zotero.org/groups/2117194/intermine/) for the full list of InterMine publications.\n\n[travis-badge-master]: https://travis-ci.org/intermine/intermine.svg?branch=master\n[ci]: https://travis-ci.org/intermine/intermine\n[readthedocs]: http://intermine.readthedocs.org/en/latest\n[tutorial]: http://intermine.readthedocs.org/en/latest/get-started/tutorial\n[psql]: http://www.postgresql.org\n[java]: http://openjdk.java.net\n[apache]: http://www.apache.org\n[tomcat]: http://tomcat.apache.org/download-70.cgi\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fintermine%2Fintermine","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fintermine%2Fintermine","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fintermine%2Fintermine/lists"}