Explore Workflows

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Graph Name Retrieved From View
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
workflow graph call_variants.cwl

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

Path: workflows/subworkflows/call_variants.cwl

Branch/Commit ID: 3441040dfaecba58150c13a95a6a93657b00778a