Explore Workflows

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

Graph Name Retrieved From View
workflow graph echo-wc_inline.cwl

Counts words of a message via echo and wc

 https://github.com/NLeSC/scriptcwl.git

Path: tests/data/workflows/echo-wc_inline.cwl

Branch/Commit ID: master
workflow graph joint genotyping for trios or small cohorts

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

Path: definitions/subworkflows/joint_genotype.cwl

Branch/Commit ID: master
workflow graph SPRM pipeline

https://github.com/hubmapconsortium/sprm.git

Path: pipeline.cwl

Branch/Commit ID: d2d5127
workflow graph running cellranger mkfastq and count

https://github.com/apaul7/cancer-genomics-workflow.git

Path: definitions/subworkflows/cellranger_mkfastq_and_count.cwl

Branch/Commit ID: low-vaf
workflow graph waltz-workflow.cwl

https://github.com/mskcc/Innovation-Pipeline.git

Path: workflows/waltz/waltz-workflow.cwl

Branch/Commit ID: master
workflow graph io-int-wf.cwl

https://github.com/common-workflow-language/cwl-v1.2.git

Path: tests/io-int-wf.cwl

Branch/Commit ID: main
workflow graph kfdrc_RNAseq_workflow.cwl

https://github.com/kids-first/kf-rnaseq-workflow.git

Path: workflow/kfdrc_RNAseq_workflow.cwl

Branch/Commit ID: master
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/apaul7/cancer-genomics-workflow.git

Path: definitions/pipelines/somatic_exome.cwl

Branch/Commit ID: low-vaf
workflow graph adapter for sequence_align_and_tag

Some workflow engines won't stage files in our nested structure, so parse it out here

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

Path: definitions/subworkflows/sequence_align_and_tag_adapter.cwl

Branch/Commit ID: master
workflow graph Exome QC workflow

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

Path: definitions/subworkflows/qc_exome.cwl

Branch/Commit ID: master