Explore Workflows

View already parsed workflows here or click here to add your own

Graph Name Retrieved From View
workflow graph STAR-Alignment-PE

This workflow aligns the fastq files using STAR for paired-end samples

 https://github.com/ncbi/cwl-ngs-workflows-cbb.git

Path: workflows/Alignments/star-alignment.cwl

Branch/Commit ID: 4b75136d8aca10fec5bf008191ceaae92b7c46fb
workflow graph Detect DoCM variants

https://github.com/genome/cancer-genomics-workflow.git

Path: docm/germline_workflow.cwl

Branch/Commit ID: e4c851d65f460e8f48ca184120044fce72cb2433
workflow graph Varscan Workflow

https://github.com/genome/cancer-genomics-workflow.git

Path: varscan/germline_workflow.cwl

Branch/Commit ID: e4c851d65f460e8f48ca184120044fce72cb2433
workflow graph Merge, annotate, and generate a TSV for SVs

https://github.com/genome/analysis-workflows.git

Path: definitions/subworkflows/merge_svs.cwl

Branch/Commit ID: 3b6d0475c80f5e452793a46a38ee188742b86595
workflow graph somatic_exome: exome alignment and somatic variant detection

somatic_exome is designed to perform processing of mutant/wildtype H.sapiens exome sequencing data. It features BQSR corrected alignments, 4 caller variant detection, and vep style annotations. Structural variants are detected via manta and cnvkit. In addition QC metrics are run, including somalier concordance metrics. example input file = analysis_workflows/example_data/somatic_exome.yaml

https://github.com/genome/analysis-workflows.git

Path: definitions/pipelines/somatic_exome.cwl

Branch/Commit ID: 43c790e2ee6a0f3f42e40fb4d9a9005eb8de747a
workflow graph 1st-workflow.cwl

https://github.com/common-workflow-language/cwltool.git

Path: tests/wf/1st-workflow.cwl

Branch/Commit ID: 9f3b9e7b74d5a904b12674dfd1300b56a48c3d33
workflow graph Varscan Workflow

https://github.com/genome/analysis-workflows.git

Path: definitions/subworkflows/varscan_pre_and_post_processing.cwl

Branch/Commit ID: 43c790e2ee6a0f3f42e40fb4d9a9005eb8de747a
workflow graph SSU-from-tablehits.cwl

https://github.com/proteinswebteam/ebi-metagenomics-cwl.git

Path: tools/SSU-from-tablehits.cwl

Branch/Commit ID: 7bb76f33bf40b5cd2604001cac46f967a209c47f
workflow graph kmer_gc_extract_wnode

https://github.com/ncbi-gpipe/pgap.git

Path: task_types/tt_kmer_gc_extract_wnode.cwl

Branch/Commit ID: 33414c888997d558bdcb558ca33c3a728a3e6143
workflow graph Detect DoCM variants

https://github.com/genome/analysis-workflows.git

Path: definitions/subworkflows/docm_germline.cwl

Branch/Commit ID: 43c790e2ee6a0f3f42e40fb4d9a9005eb8de747a