{"id":24528914,"url":"https://github.com/saezlab/funki","last_synced_at":"2025-04-14T17:10:43.078Z","repository":{"id":174493939,"uuid":"649614495","full_name":"saezlab/FUNKI","owner":"saezlab","description":"FUNctional analysis worKflows Interface","archived":false,"fork":false,"pushed_at":"2025-01-20T10:02:31.000Z","size":14707,"stargazers_count":4,"open_issues_count":0,"forks_count":1,"subscribers_count":4,"default_branch":"main","last_synced_at":"2025-03-28T05:51:03.545Z","etag":null,"topics":["analysis","omics","python","workflow"],"latest_commit_sha":null,"homepage":"https://saezlab.github.io/FUNKI","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/saezlab.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,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null}},"created_at":"2023-06-05T09:05:39.000Z","updated_at":"2025-01-20T09:56:15.000Z","dependencies_parsed_at":null,"dependency_job_id":"fe68118d-9f24-4ec0-ae22-429c8a170e06","html_url":"https://github.com/saezlab/FUNKI","commit_stats":null,"previous_names":["saezlab/funki"],"tags_count":4,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/saezlab%2FFUNKI","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/saezlab%2FFUNKI/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/saezlab%2FFUNKI/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/saezlab%2FFUNKI/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/saezlab","download_url":"https://codeload.github.com/saezlab/FUNKI/tar.gz/refs/heads/main","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":248923764,"owners_count":21183954,"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":["analysis","omics","python","workflow"],"created_at":"2025-01-22T07:33:58.288Z","updated_at":"2025-04-14T17:10:43.057Z","avatar_url":"https://github.com/saezlab.png","language":"Python","funding_links":[],"categories":[],"sub_categories":[],"readme":"\u003cimg style='padding: 10px 10px 20px 10px;' src='./docs/source/_images/funki_logo.svg' width='500'\u003e\n\n# Welcome to FUNKI\nWelcome to FUNKI, the omics FUNctional analysis worKflows Interface tool. This\nPython package is intended to integrate different omic data analysis workflows\nincluding a graphical user interface (GUI), but also as a standalone Python\npackage that users can integrate into their existing pipelines.\n\n## Disclaimer\nThis package is currently in development and features are being added regularly.\nIf you have any ideas/suggestions or if you find any bug, please feel free to\nopen an [GitHub issue](https://github.com/saezlab/FUNKI/issues). You can also\ncontribute via [pull request](https://github.com/saezlab/FUNKI/pulls).\n\nThis package is being developed by Nicolàs Palacio-Escat based on previous work\nfrom Hanna Schumacher and Rosa Hernansaiz-Ballesteros as part of the Saezlab,\nInstitute for Computational Biomedicine, Univeristy Hospital Heidelberg.\n\nThis work is being funded by the CRC 1550 - Molecular Circuits of Heart Disease.\n\n## Installation\nTo install FUNKI in your local computer you can use `pip` as follows:\n\n```bash\npip install git+https://github.com/saezlab/funki\n```\n\n## Usage\nEverything within FUNKI is works around an instance of a\n[`DataSet`](https://saezlab.github.io/FUNKI/html/input.html#funki.input.DataSet)\nobject. This class in turn inherits (i.e. is built on top of) the\n[`anndata.AnnData`](https://anndata.readthedocs.io/en/latest/generated/anndata.AnnData.html)\nclass. You can explore all implemented functionalities available\nprogrammatically in the [Documentation](https://saezlab.github.io/FUNKI/).\n\nIf you want to access FUNKI via the GUI, you need to execute the application \nscript with your Python interpreter, but first you need to download and install\nFUNKI using the commands below:\n\n```bash\ngit clone git@github.com:saezlab/FUNKI.git\ncd FUNKI\npip install ./\n```\n\nNow you can launch the FUNKI by simply running the application script:\n\n```bash\npython src/funki/app.py\n```\n\nThis should automatically open the application in your default internet browser.\nIf that is not the case, you can type or copy the following address (default)\nin the  browser bar: `http://127.0.0.1:8050/`\n\n**Note:** Refreshing the browser page will also restart the application.\n\n## Documentation\nYou can find the full documentation here, in the\n[FUNKI documentation webpage](https://saezlab.github.io/FUNKI/).\n\n---\n\nDeveloped by Nicolàs Palacio-Escat - Saezlab 2024\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fsaezlab%2Ffunki","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fsaezlab%2Ffunki","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fsaezlab%2Ffunki/lists"}