Explore Workflows
View already parsed workflows here or click here to add your own
| Graph | Name | Retrieved From | View |
|---|---|---|---|
|
|
Alignment without BQSR
|
Path: definitions/subworkflows/sequence_to_bqsr_mouse.cwl Branch/Commit ID: downsample_and_recall |
|
|
|
picard_markduplicates
Mark duplicates |
Path: structuralvariants/cwl/subworkflows/picard_markduplicates.cwl Branch/Commit ID: 1.0.6 |
|
|
|
bgzip and index VCF
|
Path: definitions/subworkflows/bgzip_and_index.cwl Branch/Commit ID: downsample_and_recall |
|
|
|
Vcf concordance evaluation workflow
|
Path: definitions/subworkflows/vcf_eval_concordance.cwl Branch/Commit ID: master |
|
|
|
kfdrc-jointgenotyping-refinement-workflow.cwl
|
Path: workflow/kfdrc-jointgenotyping-refinement-workflow.cwl Branch/Commit ID: master |
|
|
|
wflow_all_mc.cwl
|
Path: cwl/wflow_all_mc.cwl Branch/Commit ID: pack_test |
|
|
|
exomeseq-gatk4-02-variantdiscovery.cwl
|
Path: subworkflows/exomeseq-gatk4-02-variantdiscovery.cwl Branch/Commit ID: gatk4-fixes |
|
|
|
Metagenomic Binning from Assembly
Workflow for Metagenomics from raw reads to annotated bins.<br> Summary - MetaBAT2 (binning) - CheckM (bin completeness and contamination) - GTDB-Tk (bin taxonomic classification) - BUSCO (bin completeness) **All tool CWL files and other workflows can be found here:**<br> Tools: https://git.wur.nl/unlock/cwl/-/tree/master/cwl<br> Workflows: https://git.wur.nl/unlock/cwl/-/tree/master/cwl/workflows<br> The dependencies are either accessible from https://unlock-icat.irods.surfsara.nl (anonymous,anonymous)<br> and/or<br> By using the conda / pip environments as shown in https://git.wur.nl/unlock/docker/-/blob/master/kubernetes/scripts/setup.sh<br> |
Path: cwl/workflows/workflow_metagenomics_binning.cwl Branch/Commit ID: master |
|
|
|
workflow.cwl
|
Path: flow_dispatch/2blat/workflow.cwl Branch/Commit ID: master |
|
|
|
igv-report_maf_workflow.cwl
Workflow to run GetBaseCountsMultiSample fillout on a number of samples, each with their own bam and maf files |
Path: cwl/igv-report_maf_workflow.cwl Branch/Commit ID: master |
