{"id":20029699,"url":"https://github.com/multiqc/multiqc_sav","last_synced_at":"2025-07-15T21:34:37.759Z","repository":{"id":123416331,"uuid":"372760587","full_name":"MultiQC/MultiQC_SAV","owner":"MultiQC","description":"MultiQC plugin replicating the most used plots and tables from Illumina's SAV","archived":false,"fork":false,"pushed_at":"2022-04-04T13:49:19.000Z","size":234063,"stargazers_count":6,"open_issues_count":4,"forks_count":1,"subscribers_count":1,"default_branch":"main","last_synced_at":"2025-04-08T16:38:07.791Z","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/MultiQC.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":"2021-06-01T08:42:31.000Z","updated_at":"2024-09-24T21:11:12.000Z","dependencies_parsed_at":null,"dependency_job_id":"4fba33d8-005c-49a7-a0eb-ec8019fa2a27","html_url":"https://github.com/MultiQC/MultiQC_SAV","commit_stats":null,"previous_names":[],"tags_count":3,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MultiQC%2FMultiQC_SAV","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MultiQC%2FMultiQC_SAV/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MultiQC%2FMultiQC_SAV/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MultiQC%2FMultiQC_SAV/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/MultiQC","download_url":"https://codeload.github.com/MultiQC/MultiQC_SAV/tar.gz/refs/heads/main","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":252435300,"owners_count":21747394,"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":"2024-11-13T09:22:07.889Z","updated_at":"2025-05-05T03:32:29.446Z","avatar_url":"https://github.com/MultiQC.png","language":"Python","funding_links":[],"categories":[],"sub_categories":[],"readme":"# [\u003cimg src=\"docs/images/MultiQC_logo.png\" width=\"250\" title=\"MultiQC\"\u003e](https://github.com/ewels/MultiQC)\n\n![Build status](https://github.com/MultiQC/MultiQC_SAV/actions/workflows/linux.yaml/badge.svg)\n[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/multiqc_sav/README.html)\n[![Anaconda-Server Badge](https://anaconda.org/bioconda/multiqc_sav/badges/downloads.svg)](https://anaconda.org/bioconda/multiqc_sav)\n[![Anaconda-Server Badge](https://anaconda.org/bioconda/multiqc_sav/badges/latest_release_date.svg)](https://anaconda.org/bioconda/multiqc_sav)\n[![Anaconda-Server Badge](https://anaconda.org/bioconda/multiqc_sav/badges/version.svg)](https://anaconda.org/bioconda/multiqc_sav)\n\n**MultiQC_SAV is a plugin for MultiQC, leveraging the [InterOp python API](https://github.com/Illumina/interop) to generate the most used tables and graphs from the Illumina SAV**\n\nFor more information about MultiQC, see [http://multiqc.info](http://multiqc.info)\n\nFor more information about Illumina SAV, see [the Illumina support page](https://support.illumina.com/sequencing/sequencing_software/sequencing_analysis_viewer_sav/downloads.html)\n\n## Description\n\nThe MultiQC_SAV plugin parses the InterOp files in an Illumina Sequencer output directory and generates tables and graphs of the most important metrics\n\n## Example\n\nAn example report can be found [here](docs/example/NextSeq500_report.html)\n\n## Installation\n\nThis plugin can be installed using the following methods\n\n- using `pip`:\n\n```bash\npip install --upgrade --force-reinstall git+https://github.com/MultiQC/MultiQC_SAV.git\n```\n\n- using `conda`:\n\n```bash\nconda install -c bioconda multiqc_sav\n```\n\n- using `setuptools`:\n\n```bash\ngit clone https://github.com/MultiQC/MultiQC_SAV\ncd MultiQC_SAV\npython setup.py install\n```\n\n## Usage\n\nThis plugin adds a QC module and searches for the `RunInfo.xml` and `RunParameters.xml` files. 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