{"id":18736713,"url":"https://github.com/digitalslidearchive/histoqc-dsa-plugin","last_synced_at":"2025-11-16T18:30:13.136Z","repository":{"id":103252262,"uuid":"532096181","full_name":"DigitalSlideArchive/histoqc-dsa-plugin","owner":"DigitalSlideArchive","description":null,"archived":false,"fork":false,"pushed_at":"2024-02-01T14:56:44.000Z","size":67,"stargazers_count":1,"open_issues_count":3,"forks_count":2,"subscribers_count":1,"default_branch":"production","last_synced_at":"2024-12-28T16:47:29.386Z","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":null,"status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/DigitalSlideArchive.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":null,"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":"2022-09-02T22:32:10.000Z","updated_at":"2023-08-29T15:39:31.000Z","dependencies_parsed_at":"2024-11-11T02:02:12.316Z","dependency_job_id":null,"html_url":"https://github.com/DigitalSlideArchive/histoqc-dsa-plugin","commit_stats":null,"previous_names":["digitalslidearchive/histoqc-dsa-plugin"],"tags_count":0,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/DigitalSlideArchive%2Fhistoqc-dsa-plugin","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/DigitalSlideArchive%2Fhistoqc-dsa-plugin/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/DigitalSlideArchive%2Fhistoqc-dsa-plugin/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/DigitalSlideArchive%2Fhistoqc-dsa-plugin/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/DigitalSlideArchive","download_url":"https://codeload.github.com/DigitalSlideArchive/histoqc-dsa-plugin/tar.gz/refs/heads/production","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":239611992,"owners_count":19668274,"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":"2024-11-07T15:22:12.337Z","updated_at":"2025-11-16T18:30:13.105Z","avatar_url":"https://github.com/DigitalSlideArchive.png","language":"Python","funding_links":[],"categories":[],"sub_categories":[],"readme":"# histoqc-dsa-plugin\n\n## Slicer CLI Integration\n### Importing into DSA\nTo run the histoqc in batch mode, go into the proper subdirectory and rebuild the image:\n\n```bash\ncd ~\ngit clone https://github.com/Theta-Tech-AI/histoqc-dsa-plugin\ncd ~/histoqc-dsa-plugin/slicer_cli_plugin\ndocker image build -t histoqc:latest . \u0026\u0026 docker image ls | grep histoqc\n```\n\nThen, assuming that DSA is running, go to the Slicer CLI plugin config:\n![image](https://user-images.githubusercontent.com/34462353/199604503-8d2bbd8f-58cc-4d0e-a9ed-7540e91f5719.png)\n\nType in the tag of the image you just build above and click **Import Image**:\n![image](https://user-images.githubusercontent.com/34462353/199604605-20cfde51-6735-46a6-a0ad-fcc5a013b7d2.png)\n\nYou can repeat these steps any time you make an update to the `slicer_cli_plugin` code.\n\n### Running HistoQC\nThen, navigate to an pathology image and click **Open In HistomicsUI**:\n![image](https://user-images.githubusercontent.com/34462353/199604996-fdf13639-0a46-4997-a551-ca729e79931e.png)\n\nNow, navigate to the HistoQC analysis and click Submit to begin running HistoQC:\n![image](https://user-images.githubusercontent.com/34462353/199605419-8711c99d-1080-4abc-b036-0b014daedca8.png)\n\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fdigitalslidearchive%2Fhistoqc-dsa-plugin","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fdigitalslidearchive%2Fhistoqc-dsa-plugin","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fdigitalslidearchive%2Fhistoqc-dsa-plugin/lists"}