Explore Workflows

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

Graph Name Retrieved From View
workflow graph Subworkflow to allow calling different SV callers which require bam files as inputs

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

Path: definitions/subworkflows/single_sample_sv_callers.cwl

Branch/Commit ID: 67f56d3b9c70ad56019ed8aa8d50a128e02be43b
workflow graph scatter GATK HaplotypeCaller over intervals

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

Path: definitions/subworkflows/gatk_haplotypecaller_iterator.cwl

Branch/Commit ID: 3a287b7cb6162cdea79865235d224fea45963d87
workflow graph gathered exome alignment and somatic variant detection

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

Path: definitions/pipelines/somatic_exome_gathered.cwl

Branch/Commit ID: ac87e0584685fe04e4010ecd77ae4f055f21d788
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: ac87e0584685fe04e4010ecd77ae4f055f21d788
workflow graph atm-plev-n2n.cwl

https://github.com/E3SM-Project/e3sm_to_cmip.git

Path: scripts/cwl_workflows/atm-unified/atm-plev-n2n.cwl

Branch/Commit ID: a9aab1f9b33a79e7771adb705f61ee8df7db9774
workflow graph kf_jointgenotyping_workflow.cwl

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

Path: workflow/kf_jointgenotyping_workflow.cwl

Branch/Commit ID: 58fc7a3c09dc37e38c89ae1621f49c79403a9f56
workflow graph genomics-workspace-transcript.cwl

https://github.com/NAL-i5K/Organism_Onboarding.git

Path: flow_genomicsWorkspace/genomics-workspace-transcript.cwl

Branch/Commit ID: 45bb8fc5cc5e5fee3f29099469621a53d084757d
workflow graph revsort.cwl

Reverse the lines in a document, then sort those lines.

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

Path: tests/revsort.cwl

Branch/Commit ID: 5e3fac092a720c5670ae3e787eabe1aaade71d83
workflow graph cmsearch-multimodel.cwl

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

Path: workflows/cmsearch-multimodel.cwl

Branch/Commit ID: fa86fce570ab91c624272c8ffda672069d2f276d
workflow graph Tumor-Only Detect Variants workflow

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

Path: definitions/pipelines/tumor_only_detect_variants.cwl

Branch/Commit ID: ac87e0584685fe04e4010ecd77ae4f055f21d788