{"id":15902123,"url":"https://github.com/hallerpatrick/nextflow-exercises","last_synced_at":"2026-02-03T07:34:52.650Z","repository":{"id":109919741,"uuid":"369544500","full_name":"HallerPatrick/nextflow-exercises","owner":"HallerPatrick","description":null,"archived":false,"fork":false,"pushed_at":"2021-07-01T18:23:41.000Z","size":318585,"stargazers_count":0,"open_issues_count":0,"forks_count":0,"subscribers_count":2,"default_branch":"main","last_synced_at":"2025-10-10T06:53:46.654Z","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":null,"status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/HallerPatrick.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":"2021-05-21T13:28:53.000Z","updated_at":"2021-07-01T18:23:44.000Z","dependencies_parsed_at":"2023-03-13T14:00:44.376Z","dependency_job_id":null,"html_url":"https://github.com/HallerPatrick/nextflow-exercises","commit_stats":null,"previous_names":[],"tags_count":1,"template":false,"template_full_name":null,"purl":"pkg:github/HallerPatrick/nextflow-exercises","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/HallerPatrick%2Fnextflow-exercises","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/HallerPatrick%2Fnextflow-exercises/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/HallerPatrick%2Fnextflow-exercises/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/HallerPatrick%2Fnextflow-exercises/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/HallerPatrick","download_url":"https://codeload.github.com/HallerPatrick/nextflow-exercises/tar.gz/refs/heads/main","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/HallerPatrick%2Fnextflow-exercises/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":286080680,"owners_count":29037528,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2026-02-03T06:39:36.383Z","status":"ssl_error","status_checked_at":"2026-02-03T06:39:32.787Z","response_time":96,"last_error":"SSL_read: unexpected eof while reading","robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":false,"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":"2024-10-06T11:22:31.755Z","updated_at":"2026-02-03T07:34:52.635Z","avatar_url":"https://github.com/HallerPatrick.png","language":"Nextflow","funding_links":[],"categories":[],"sub_categories":[],"readme":"# nextflow-exercises\n\nAll exercises for the seminar Workflows for Scientific Data Analysis with Nextflow.\n\n\nAll workflow scripts are under the `workflow` directory, while the python scripts which are\nactually doing the logic are under `lib`.\n\nResults are written into `results`.\n\n\n# Sample Project\n\n## Overview\n\n```mermaid\n\ngraph LR\n    A{ Source Texts } --\u003e Tokenization --\u003e Kmers \u0026 Frequncy --\u003e E[Merge Results]\n\n```\n\n## Results of running nextflow pipelines\n\n\n| Pipeline   | URL                                       | Deployability | Docker | Reason                                      |\n| ---        | ---                                       | ---           | ---    | ---                                         |\n| RNA-seq    | https://github.com/nextflow-io/rnatoy     | S             | Ubuntu | -                                           |\n| RNA-seq    | https://github.com/nextflow-io/rnaseq-nf  | S             | Debian | -                                           |\n| MTA-NF     | https://github.com/cbcrg/mta-nf           | F             | Debian | Outdated links for downloading dependencies |\n| AMPA-NF    | https://github.com/cbcrg/ampa-nf          | MiP           | Debian | Missing Perl dependencies                   |\n| cegwas2-nf | https://github.com/AndersenLab/cegwas2-nf | MaP           | -      | Conda environemnt needed, couldnt be set up |\n| YAMP       | https://github.com/alesssia/YAMP          | MiP           | -      | Download of external database               |\n| FA-nf      | https://github.com/anvlasova/FA-nf        | MiP           | -      | Download external data                      |\n|            |                                           |               |        |                                             |\n\n\nS: Success, instantly runnable\nMiP: Minor Problems\nMaP: Major Problems\nF: Failure\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fhallerpatrick%2Fnextflow-exercises","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fhallerpatrick%2Fnextflow-exercises","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fhallerpatrick%2Fnextflow-exercises/lists"}