{"id":18963913,"url":"https://github.com/janeliascicomp/nextflow-modules","last_synced_at":"2026-03-19T07:22:30.803Z","repository":{"id":198027799,"uuid":"699440410","full_name":"JaneliaSciComp/nextflow-modules","owner":"JaneliaSciComp","description":"Nextflow modules for use with nf-core tooling","archived":false,"fork":false,"pushed_at":"2026-01-23T16:42:40.000Z","size":296,"stargazers_count":1,"open_issues_count":0,"forks_count":0,"subscribers_count":7,"default_branch":"main","last_synced_at":"2026-01-23T16:47:03.424Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"language":"Nextflow","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"bsd-3-clause","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/JaneliaSciComp.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,"zenodo":null,"notice":null,"maintainers":null,"copyright":null,"agents":null,"dco":null,"cla":null}},"created_at":"2023-10-02T16:32:01.000Z","updated_at":"2026-01-23T16:42:43.000Z","dependencies_parsed_at":"2023-10-04T04:23:19.962Z","dependency_job_id":"895f0b18-707c-4c9b-bfae-f86052751563","html_url":"https://github.com/JaneliaSciComp/nextflow-modules","commit_stats":null,"previous_names":["janeliascicomp/nf-modules"],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/JaneliaSciComp/nextflow-modules","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/JaneliaSciComp%2Fnextflow-modules","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/JaneliaSciComp%2Fnextflow-modules/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/JaneliaSciComp%2Fnextflow-modules/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/JaneliaSciComp%2Fnextflow-modules/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/JaneliaSciComp","download_url":"https://codeload.github.com/JaneliaSciComp/nextflow-modules/tar.gz/refs/heads/main","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/JaneliaSciComp%2Fnextflow-modules/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":286080680,"owners_count":28796962,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2026-01-27T01:07:07.743Z","status":"online","status_checked_at":"2026-01-27T02:00:07.755Z","response_time":168,"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"}},"keywords":[],"created_at":"2024-11-08T14:22:27.125Z","updated_at":"2026-01-27T02:05:22.398Z","avatar_url":"https://github.com/JaneliaSciComp.png","language":"Nextflow","funding_links":[],"categories":[],"sub_categories":[],"readme":"# Nextflow modules\n\nThis repository holds reusable modules, subworkflows that are used in Janelia Nextflow pipelines.\n\nThe repository is formatted to be compatible with [nf-core tooling](https://nf-co.re/), in particular the [module system](https://github.com/nf-core/modules/tree/master).\n\n## Prerequisites\n\nYou  must [install nf-core tools](https://nf-co.re/tools) in your environment before you can install modules from this repository.\n\n## List modules\n\n```bash\nnf-core modules -g JaneliaSciComp/nextflow-modules list remote\n```\n\n## Installing a module\n\nTo install a module into a pipeline, use the `modules install` command, e.g.:\n\n```bash\nnf-core modules -g JaneliaSciComp/nextflow-modules install spark/prepare\n```\n\n## Installing a subworkflow\n\n```bash\nnf-core subworkflows -g JaneliaSciComp/nextflow-modules install spark_start\n```\n\nThis will install the subworkflow and all of its dependencies including the **spark_cluster** subworkflow and all necessary modules.\n\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fjaneliascicomp%2Fnextflow-modules","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fjaneliascicomp%2Fnextflow-modules","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fjaneliascicomp%2Fnextflow-modules/lists"}