{"id":34668,"name":"eista","description":"A single-cell spatial transcriptomics pipeline aimed at covering all analysis stages from quantification and clustering to tertiary analyses.","url":"https://github.com/tgac/eista","last_synced_at":"2025-09-05T06:17:22.503Z","repository":{"id":276808518,"uuid":"930253426","full_name":"TGAC/eista","owner":"TGAC","description":"A single-cell spatial transcriptomics pipeline aimed at covering all analysis stages from quantification and clustering to tertiary analyses.","archived":false,"fork":false,"pushed_at":"2025-09-02T15:51:19.000Z","size":532,"stargazers_count":0,"open_issues_count":0,"forks_count":0,"subscribers_count":2,"default_branch":"master","last_synced_at":"2025-09-02T17:39:20.353Z","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/TGAC.png","metadata":{"files":{"readme":"README.md","changelog":"CHANGELOG.md","contributing":".github/CONTRIBUTING.md","funding":null,"license":"LICENSE","code_of_conduct":"CODE_OF_CONDUCT.md","threat_model":null,"audit":null,"citation":"CITATIONS.md","codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null,"zenodo":null,"notice":null,"maintainers":null,"copyright":null,"agents":null,"dco":null,"cla":null}},"created_at":"2025-02-10T10:33:14.000Z","updated_at":"2025-09-02T15:51:23.000Z","dependencies_parsed_at":"2025-09-02T17:25:30.685Z","dependency_job_id":"deaaff5c-c184-4429-8273-03602d90c738","html_url":"https://github.com/TGAC/eista","commit_stats":null,"previous_names":["tgac/eista"],"tags_count":5,"template":false,"template_full_name":null,"purl":"pkg:github/TGAC/eista","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TGAC%2Feista","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TGAC%2Feista/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TGAC%2Feista/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TGAC%2Feista/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/TGAC","download_url":"https://codeload.github.com/TGAC/eista/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/TGAC%2Feista/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":273719780,"owners_count":25155792,"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","status":"online","status_checked_at":"2025-09-05T02:00:09.113Z","response_time":402,"last_error":null,"robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":true,"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"}},"owner":{"login":"TGAC","name":"Earlham Institute","uuid":"1872319","kind":"organization","description":"BBSRC-supported life science research institute in Norwich, UK","email":null,"website":"https://www.earlham.ac.uk","location":"Norwich, UK","twitter":"EarlhamInst","company":null,"icon_url":"https://avatars.githubusercontent.com/u/1872319?v=4","repositories_count":118,"last_synced_at":"2023-05-24T04:00:33.853Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/TGAC","funding_links":[],"total_stars":null,"followers":null,"following":null,"created_at":"2022-11-05T05:02:54.584Z","updated_at":"2023-05-24T04:00:33.870Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/TGAC","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/TGAC/repositories"},"packages":null,"commits":{"message":"Repository syncing started."},"issues_stats":{"full_name":"tgac/eista","html_url":"https://github.com/tgac/eista","last_synced_at":null,"status":null,"issues_count":null,"pull_requests_count":null,"avg_time_to_close_issue":null,"avg_time_to_close_pull_request":null,"issues_closed_count":null,"pull_requests_closed_count":null,"pull_request_authors_count":null,"issue_authors_count":null,"avg_comments_per_issue":null,"avg_comments_per_pull_request":null,"merged_pull_requests_count":null,"bot_issues_count":null,"bot_pull_requests_count":null,"past_year_issues_count":null,"past_year_pull_requests_count":null,"past_year_avg_time_to_close_issue":null,"past_year_avg_time_to_close_pull_request":null,"past_year_issues_closed_count":null,"past_year_pull_requests_closed_count":null,"past_year_pull_request_authors_count":null,"past_year_issue_authors_count":null,"past_year_avg_comments_per_issue":null,"past_year_avg_comments_per_pull_request":null,"past_year_bot_issues_count":null,"past_year_bot_pull_requests_count":null,"past_year_merged_pull_requests_count":null,"created_at":"2025-09-05T06:16:47.595Z","updated_at":"2025-09-05T06:16:47.595Z","repository_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/tgac%2Feista","issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/tgac%2Feista/issues","issue_labels_count":{},"pull_request_labels_count":{},"issue_author_associations_count":{},"pull_request_author_associations_count":{},"issue_authors":{},"pull_request_authors":{},"host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-05T00:00:10.444Z","repositories_count":10087320,"issues_count":31306968,"pull_requests_count":96469683,"authors_count":10696025,"icon_url":"https://github.com/github.png","host_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories","owners_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/owners","authors_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors"},"past_year_issue_labels_count":{},"past_year_pull_request_labels_count":{},"past_year_issue_author_associations_count":{},"past_year_pull_request_author_associations_count":{},"past_year_issue_authors":{},"past_year_pull_request_authors":{},"maintainers":[],"active_maintainers":[]},"events":{"total":{"DeleteEvent":3,"MemberEvent":1,"PushEvent":24,"CreateEvent":7},"last_year":{"DeleteEvent":3,"MemberEvent":1,"PushEvent":24,"CreateEvent":7}},"keywords":[],"dependencies":[{"ecosystem":"actions","filepath":".github/workflows/awsfulltest.yml","sha":null,"kind":"manifest","created_at":"2025-02-10T15:45:08.798Z","updated_at":"2025-02-10T15:45:08.798Z","repository_link":"https://github.com/TGAC/eista/blob/master/.github/workflows/awsfulltest.yml","dependencies":[{"id":21819660466,"package_name":"seqeralabs/action-tower-launch","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false},{"id":21819661158,"package_name":"actions/upload-artifact","ecosystem":"actions","requirements":"v4","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/awstest.yml","sha":null,"kind":"manifest","created_at":"2025-02-10T15:45:11.163Z","updated_at":"2025-02-10T15:45:11.163Z","repository_link":"https://github.com/TGAC/eista/blob/master/.github/workflows/awstest.yml","dependencies":[{"id":21819661527,"package_name":"seqeralabs/action-tower-launch","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false},{"id":21819661528,"package_name":"actions/upload-artifact","ecosystem":"actions","requirements":"v4","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/branch.yml","sha":null,"kind":"manifest","created_at":"2025-02-10T15:45:11.243Z","updated_at":"2025-02-10T15:45:11.243Z","repository_link":"https://github.com/TGAC/eista/blob/master/.github/workflows/branch.yml","dependencies":[{"id":21819661572,"package_name":"mshick/add-pr-comment","ecosystem":"actions","requirements":"b8f338c590a895d50bcbfa6c5859251edc8952fc","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/ci.yml","sha":null,"kind":"manifest","created_at":"2025-02-10T15:45:12.353Z","updated_at":"2025-02-10T15:45:12.353Z","repository_link":"https://github.com/TGAC/eista/blob/master/.github/workflows/ci.yml","dependencies":[{"id":21819662615,"package_name":"actions/checkout","ecosystem":"actions","requirements":"0ad4b8fadaa221de15dcec353f45205ec38ea70b","direct":true,"kind":"composite","optional":false},{"id":21819662616,"package_name":"nf-core/setup-nextflow","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false},{"id":21819663034,"package_name":"jlumbroso/free-disk-space","ecosystem":"actions","requirements":"54081f138730dfa15788a46383842cd2f914a1be","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/clean-up.yml","sha":null,"kind":"manifest","created_at":"2025-02-10T15:45:13.465Z","updated_at":"2025-02-10T15:45:13.465Z","repository_link":"https://github.com/TGAC/eista/blob/master/.github/workflows/clean-up.yml","dependencies":[{"id":21819663459,"package_name":"actions/stale","ecosystem":"actions","requirements":"28ca1036281a5e5922ead5184a1bbf96e5fc984e","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/download_pipeline.yml","sha":null,"kind":"manifest","created_at":"2025-02-10T15:45:13.676Z","updated_at":"2025-02-10T15:45:13.676Z","repository_link":"https://github.com/TGAC/eista/blob/master/.github/workflows/download_pipeline.yml","dependencies":[{"id":21819664592,"package_name":"nf-core/setup-nextflow","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false},{"id":21819664593,"package_name":"jlumbroso/free-disk-space","ecosystem":"actions","requirements":"54081f138730dfa15788a46383842cd2f914a1be","direct":true,"kind":"composite","optional":false},{"id":21819664594,"package_name":"actions/setup-python","ecosystem":"actions","requirements":"82c7e631bb3cdc910f68e0081d67478d79c6982d","direct":true,"kind":"composite","optional":false},{"id":21819664595,"package_name":"eWaterCycle/setup-singularity","ecosystem":"actions","requirements":"931d4e31109e875b13309ae1d07c70ca8fbc8537","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/fix-linting.yml","sha":null,"kind":"manifest","created_at":"2025-02-10T15:45:15.135Z","updated_at":"2025-02-10T15:45:15.135Z","repository_link":"https://github.com/TGAC/eista/blob/master/.github/workflows/fix-linting.yml","dependencies":[{"id":21819664791,"package_name":"actions/checkout","ecosystem":"actions","requirements":"0ad4b8fadaa221de15dcec353f45205ec38ea70b","direct":true,"kind":"composite","optional":false},{"id":21819664792,"package_name":"peter-evans/create-or-update-comment","ecosystem":"actions","requirements":"71345be0265236311c031f5c7866368bd1eff043","direct":true,"kind":"composite","optional":false},{"id":21819665804,"package_name":"actions/setup-python","ecosystem":"actions","requirements":"82c7e631bb3cdc910f68e0081d67478d79c6982d","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/linting.yml","sha":null,"kind":"manifest","created_at":"2025-02-10T15:45:16.498Z","updated_at":"2025-02-10T15:45:16.498Z","repository_link":"https://github.com/TGAC/eista/blob/master/.github/workflows/linting.yml","dependencies":[{"id":21819666386,"package_name":"actions/checkout","ecosystem":"actions","requirements":"0ad4b8fadaa221de15dcec353f45205ec38ea70b","direct":true,"kind":"composite","optional":false},{"id":21819666387,"package_name":"actions/setup-python","ecosystem":"actions","requirements":"82c7e631bb3cdc910f68e0081d67478d79c6982d","direct":true,"kind":"composite","optional":false},{"id":21819666388,"package_name":"nf-core/setup-nextflow","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false},{"id":21819666389,"package_name":"actions/upload-artifact","ecosystem":"actions","requirements":"65462800fd760344b1a7b4382951275a0abb4808","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/linting_comment.yml","sha":null,"kind":"manifest","created_at":"2025-02-10T15:45:16.893Z","updated_at":"2025-02-10T15:45:16.893Z","repository_link":"https://github.com/TGAC/eista/blob/master/.github/workflows/linting_comment.yml","dependencies":[{"id":21819666911,"package_name":"dawidd6/action-download-artifact","ecosystem":"actions","requirements":"09f2f74827fd3a8607589e5ad7f9398816f540fe","direct":true,"kind":"composite","optional":false},{"id":21819666916,"package_name":"marocchino/sticky-pull-request-comment","ecosystem":"actions","requirements":"331f8f5b4215f0445d3c07b4967662a32a2d3e31","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/release-announcements.yml","sha":null,"kind":"manifest","created_at":"2025-02-10T15:45:17.416Z","updated_at":"2025-02-10T15:45:17.416Z","repository_link":"https://github.com/TGAC/eista/blob/master/.github/workflows/release-announcements.yml","dependencies":[{"id":21819668204,"package_name":"rzr/fediverse-action","ecosystem":"actions","requirements":"master","direct":true,"kind":"composite","optional":false},{"id":21819668700,"package_name":"actions/setup-python","ecosystem":"actions","requirements":"82c7e631bb3cdc910f68e0081d67478d79c6982d","direct":true,"kind":"composite","optional":false},{"id":21819668701,"package_name":"zentered/bluesky-post-action","ecosystem":"actions","requirements":"80dbe0a7697de18c15ad22f4619919ceb5ccf597","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"cpan","filepath":"modules/nf-core/fastqc/meta.yml","sha":null,"kind":"manifest","created_at":"2025-02-10T15:45:22.568Z","updated_at":"2025-02-10T15:45:22.568Z","repository_link":"https://github.com/TGAC/eista/blob/master/modules/nf-core/fastqc/meta.yml","dependencies":[]},{"ecosystem":"cpan","filepath":"modules/nf-core/multiqc/meta.yml","sha":null,"kind":"manifest","created_at":"2025-02-10T15:45:22.610Z","updated_at":"2025-02-10T15:45:22.610Z","repository_link":"https://github.com/TGAC/eista/blob/master/modules/nf-core/multiqc/meta.yml","dependencies":[]},{"ecosystem":"cpan","filepath":"subworkflows/nf-core/utils_nextflow_pipeline/meta.yml","sha":null,"kind":"manifest","created_at":"2025-02-10T15:45:22.658Z","updated_at":"2025-02-10T15:45:22.658Z","repository_link":"https://github.com/TGAC/eista/blob/master/subworkflows/nf-core/utils_nextflow_pipeline/meta.yml","dependencies":[]},{"ecosystem":"cpan","filepath":"subworkflows/nf-core/utils_nfcore_pipeline/meta.yml","sha":null,"kind":"manifest","created_at":"2025-02-10T15:45:22.762Z","updated_at":"2025-02-10T15:45:22.762Z","repository_link":"https://github.com/TGAC/eista/blob/master/subworkflows/nf-core/utils_nfcore_pipeline/meta.yml","dependencies":[]},{"ecosystem":"cpan","filepath":"subworkflows/nf-core/utils_nfvalidation_plugin/meta.yml","sha":null,"kind":"manifest","created_at":"2025-02-10T15:45:22.875Z","updated_at":"2025-02-10T15:45:22.875Z","repository_link":"https://github.com/TGAC/eista/blob/master/subworkflows/nf-core/utils_nfvalidation_plugin/meta.yml","dependencies":[]},{"ecosystem":"pypi","filepath":"modules/nf-core/fastqc/environment.yml","sha":null,"kind":"manifest","created_at":"2025-09-02T17:25:28.632Z","updated_at":"2025-09-02T17:25:28.632Z","repository_link":"https://github.com/TGAC/eista/blob/master/modules/nf-core/fastqc/environment.yml","dependencies":[]},{"ecosystem":"pypi","filepath":"modules/nf-core/multiqc/environment.yml","sha":null,"kind":"manifest","created_at":"2025-09-02T17:25:28.687Z","updated_at":"2025-09-02T17:25:28.687Z","repository_link":"https://github.com/TGAC/eista/blob/master/modules/nf-core/multiqc/environment.yml","dependencies":[]}],"score":null,"created_at":"2025-09-04T15:51:08.069Z","updated_at":"2025-10-07T08:14:29.146Z","avatar_url":"https://github.com/TGAC.png","language":"Python","category":null,"sub_category":null,"monthly_downloads":0,"funding_links":[],"readme_doi_urls":["https://doi.org/10.5281/zenodo.XXXXXXX","https://doi.org/10.5281/zenodo.XXXXXX","https://dx.doi.org/10.1038/s41587-020-0439-x"],"works":{},"citation_counts":{},"total_citations":0,"keywords_from_contributors":[],"project_url":"https://science.ecosyste.ms/api/v1/projects/34668","html_url":"https://science.ecosyste.ms/projects/34668","bibtex_url":"https://science.ecosyste.ms/projects/34668/export.bibtex","apalike_url":"https://science.ecosyste.ms/projects/34668/export.apalike"}