{"id":20153600,"url":"https://github.com/seqan/knime_seqan_workflows","last_synced_at":"2026-02-15T22:31:15.813Z","repository":{"id":15401895,"uuid":"18133860","full_name":"seqan/knime_seqan_workflows","owner":"seqan","description":"KNIME example workflows for NGS data analysis with SeqAn apps.","archived":false,"fork":false,"pushed_at":"2016-05-12T15:46:19.000Z","size":61674,"stargazers_count":5,"open_issues_count":0,"forks_count":5,"subscribers_count":8,"default_branch":"master","last_synced_at":"2026-02-11T02:26:35.026Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"language":null,"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/seqan.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}},"created_at":"2014-03-26T10:06:45.000Z","updated_at":"2019-08-13T05:36:29.000Z","dependencies_parsed_at":"2022-08-26T07:41:10.729Z","dependency_job_id":null,"html_url":"https://github.com/seqan/knime_seqan_workflows","commit_stats":null,"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/seqan/knime_seqan_workflows","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/seqan%2Fknime_seqan_workflows","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/seqan%2Fknime_seqan_workflows/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/seqan%2Fknime_seqan_workflows/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/seqan%2Fknime_seqan_workflows/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/seqan","download_url":"https://codeload.github.com/seqan/knime_seqan_workflows/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/seqan%2Fknime_seqan_workflows/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":286080680,"owners_count":29490850,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2026-02-15T19:29:10.908Z","status":"ssl_error","status_checked_at":"2026-02-15T19:29:10.419Z","response_time":118,"last_error":"SSL_connect returned=1 errno=0 peeraddr=140.82.121.5:443 state=error: 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":"2024-11-13T23:19:51.133Z","updated_at":"2026-02-15T22:31:15.791Z","avatar_url":"https://github.com/seqan.png","language":null,"funding_links":[],"categories":[],"sub_categories":[],"readme":"SeqAn Community Workflows\n=========================\n\nKNIME example workflows for NGS data analysis with SeqAn apps. Here we host and share community workflows.\n\nPlease read the howto at http://seqan.readthedocs.io/en/master/Tutorial/Workflows/UseSeqAnNodesInKnime.html first about how to integrate\nSeqAn nodes into KNIME and how to use or contribute workflows.\n\nWorkflows\n---------\n\n### Variant Calling ###\n  \u003cdl\u003e\n    \u003cdt\u003e[Variant Calling with SnpStore](variant_calling_snpstore_workflow)\u003c/dt\u003e\n    \u003cdd\u003eTwo variant calling workflows based on the read mapper RazerS 3 and the variant caller SnpStore.\u003c/dd\u003e\n    \u003cdt\u003e[Variant Calling with mpileup](variant_calling_bwa_workflow)\u003c/dt\u003e\n    \u003cdd\u003eA variant calling workflow based on the read mapper BWA and samtools mpileup for variant calling.\u003c/dd\u003e\n  \u003c/dl\u003e\n\n### BS-Seq Analysis ###\n  \u003cdl\u003e\n    \u003cdt\u003e[BS-Seq Analysis with bs-tools](bs_seq_analysis_workflow)\u003c/dt\u003e\n    \u003cdd\u003eA workflow for BS-Seq data analysis, from bisulfite read mapping to SNP and methylation level calling at single-nucleotide resolution.\u003c/dd\u003e\n  \u003c/dl\u003e\n\n### Metagenomics ###\n  \u003cdl\u003e\n    \u003cdt\u003e[GASiC workflow](metagenomics_gasic_workflow)\u003c/dt\u003e\n    \u003cdd\u003eGenome Abundance Similarity Correction workflow.\u003c/dd\u003e\n  \u003c/dl\u003e\n\n### Benchmarking ###\n  \u003cdl\u003e\n    \u003cdt\u003e[Rabema Example Workflow](rabema_example_workflow)\u003c/dt\u003e\n    \u003cdd\u003eA workflow to benchmark the sensitivity of read mappers.\u003c/dd\u003e\n  \u003c/dl\u003e\n    \nContact\n-------\n\nIf you have questions feel free to contact the SeqAn mailing list at seqan-dev@lists.fu-berlin.de\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fseqan%2Fknime_seqan_workflows","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fseqan%2Fknime_seqan_workflows","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fseqan%2Fknime_seqan_workflows/lists"}