Explore Workflows

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

Graph Name Retrieved From View
workflow graph FASTQ Vector Removal

This workflow clean up vectros from fastq files

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

Path: workflows/File-formats/remove-fastq-reads-from-blast.cwl

Branch/Commit ID: 1b1cb5bbbe53a2dd5d7de7cdbff19c1bdbe23a49
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: 8da2b1cd6fa379b2c22baf9dad762d39630e6f46
workflow graph animal-genome-assembly.packed.cwl#main

Animal Genome Assembly pipeline by Kazuharu Arakawa (@gaou_ak) without assembly step by canu, CWLized by Tazro Ohta (@inutano)

 https://github.com/pitagora-network/DAT2-cwl.git

Path: workflow/animal-genome-assembly/animal-genome-assembly.packed.cwl

Branch/Commit ID: 6db4456ca7314b036e59f50910654066da99772a

Packed ID: main
workflow graph loadingAD_chunkWF.cwl

https://github.com/arvados/l7g-ml.git

Path: ADAnalysis/cwl/loadingAD_chunkWF.cwl

Branch/Commit ID: e4f5bc41d307ae307e7549f128183839b30b9018
workflow graph pair-workflow-sv.cwl

https://github.com/mskcc/argos-cwl.git

Path: workflows/pair-workflow-sv.cwl

Branch/Commit ID: 507efdf727d2a5ec7b91007e7c953b1a2d81b288
workflow graph WGS and MT analysis for fastq files

rna / protein - qc, preprocess, filter, annotation, index, abundance

 https://github.com/MG-RAST/pipeline.git

Path: CWL/Workflows/wgs-fasta.workflow.cwl

Branch/Commit ID: f5839797da8209a9d3e441023f88130219751020
workflow graph animal-genome-assembly.cwl

Animal Genome Assembly pipeline by Kazuharu Arakawa (@gaou_ak) without assembly step by canu, CWLized by Tazro Ohta (@inutano)

 https://github.com/pitagora-network/DAT2-cwl.git

Path: workflow/animal-genome-assembly/animal-genome-assembly.cwl

Branch/Commit ID: 6db4456ca7314b036e59f50910654066da99772a
workflow graph segmentation.cwl

https://github.com/hubmapconsortium/spatial-transcriptomics-pipeline.git

Path: steps/segmentation.cwl

Branch/Commit ID: 2e31b8ddd4d509c7bbcb983ad41e401687623ddb
workflow graph qc_workflow.cwl

https://github.com/andurill/ACCESS-Pipeline.git

Path: workflows/QC/qc_workflow.cwl

Branch/Commit ID: 3441040dfaecba58150c13a95a6a93657b00778a
workflow graph steplevel-resreq.cwl

https://github.com/common-workflow-language/cwl-v1.1.git

Path: tests/steplevel-resreq.cwl

Branch/Commit ID: 368b562a1449e8cd39ae8b7f05926b2bfb9b22df