Explore Workflows

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

Graph Name Retrieved From View
workflow graph exome alignment and variant detection

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

Path: exome_workflow.cwl

Branch/Commit ID: ab3cc1f460146c60d7de417508f0c1ea70506e6a
workflow graph scatter-valuefrom-wf6.cwl

https://github.com/common-workflow-language/cwltool.git

Path: cwltool/schemas/v1.0/v1.0/scatter-valuefrom-wf6.cwl

Branch/Commit ID: 665141f319e6b23bd9924b14844f2e979f141944
workflow graph apply_cal.cwl

https://github.com/peijin94/LOFAR-Sun-tools.git

Path: utils/IM/LINC/lincSun/workflow/apply_cal.cwl

Branch/Commit ID: f44502475496d46a6cde17b9881aa19d852debfb
workflow graph GATKBaseRecalBQSRWorkflow_4_1_3.cwl

https://github.com/PMCC-BioinformaticsCore/janis-pipelines.git

Path: janis_pipelines/wgs_somatic/cwl/tools/GATKBaseRecalBQSRWorkflow_4_1_3.cwl

Branch/Commit ID: d919f2dd335da64a4fa352df9ea1b27ba13edad8
workflow graph wgs alignment with qc

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

Path: definitions/pipelines/wgs_alignment.cwl

Branch/Commit ID: 6f9f8a2057c6a9f221a44559f671e87a75c70075
workflow graph allele-vcf-alignreads-se-pe.cwl

Workflow maps FASTQ files from `fastq_files` input into reference genome `reference_star_indices_folder` and insilico generated `insilico_star_indices_folder` genome (concatenated genome for both `strain1` and `strain2` strains). For both genomes STAR is run with `outFilterMultimapNmax` parameter set to 1 to discard all of the multimapped reads. For insilico genome SAM file is generated. Then it's splitted into two SAM files based on strain names and then sorted by coordinates into the BAM format. For reference genome output BAM file from STAR slignment is also coordinate sorted.

https://github.com/Barski-lab/workflows.git

Path: subworkflows/allele-vcf-alignreads-se-pe.cwl

Branch/Commit ID: ca2dbb71d0537b1d93a8bd44719250cf8949b157
workflow graph umi duplex alignment workflow

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

Path: definitions/subworkflows/duplex_alignment.cwl

Branch/Commit ID: 0d2f354af9192a56af258a7d2426c7c160f4ec1a
workflow graph HS Metrics workflow

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

Path: definitions/subworkflows/hs_metrics.cwl

Branch/Commit ID: a3e26136043c03192c38c335316d2d36e3e67478
workflow graph Add snv and indel bam-readcount files to a vcf

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

Path: definitions/subworkflows/vcf_readcount_annotator.cwl

Branch/Commit ID: f42c889734c8f709ad2fd9090493bcaac8326c98
workflow graph scatter-wf2.cwl

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

Path: tests/scatter-wf2.cwl

Branch/Commit ID: 664835e83eb5e57eee18a04ce7b05fb9d70d77b7