Explore Workflows
View already parsed workflows here or click here to add your own
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UW GAC (GENESIS) VCF to GDS
**VCF to GDS** workflow converts VCF or BCF files into Genomic Data Structure (GDS) format. GDS files are required by all workflows utilizing the GENESIS or SNPRelate R packages. _Filename requirements_: The input file names should follow the pattern <A>chr<X>.<y> For example: 1KG_phase3_subset_chr1.vcf.gz Some of the tools inside the workflow infer the chromosome number from the file by expecting this pattern of file name. |
Path: vcftogds/vcf-to-gds-wf.cwl Branch/Commit ID: master |
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BwaAligner_1_0_0.cwl
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Path: janis_pipelines/wgs_somatic/cwl/tools/BwaAligner_1_0_0.cwl Branch/Commit ID: master |
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checker_workflow.cwl
Description of checker workflow here |
Path: checker_workflow.cwl Branch/Commit ID: 1.3.0 |
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workflow-fasta-pratt.cwl
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Path: workflows/workflow-fasta-pratt.cwl Branch/Commit ID: master |
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picard_markduplicates
Mark duplicates |
Path: structuralvariants/cwl/subworkflows/picard_markduplicates.cwl Branch/Commit ID: 1.0.7 |
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oxog_varbam_annotate_wf.cwl
This workflow will run OxoG, variantbam, and annotate. Run this as `dockstore --script --debug workflow launch --descriptor cwl --local-entry --entry ./oxog_varbam_annotate_wf.cwl --json oxog_varbam_annotat_wf.input.json ` |
Path: oxog_varbam_annotate_wf.cwl Branch/Commit ID: master |
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VIRTUS.SE.cwl
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Path: workflow/VIRTUS.SE.cwl Branch/Commit ID: master |
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qc_workflow.cwl
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Path: workflows/QC/qc_workflow.cwl Branch/Commit ID: master |
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workflow.cwl
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Path: examples/cat-grep-tar/workflow.cwl Branch/Commit ID: develop |
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scatter-wf1.cwl
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Path: tests/scatter-wf1.cwl Branch/Commit ID: main |
