Explore Workflows

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

Graph Name Retrieved From View
workflow graph ChIP-exo peak caller workflow for single-end samples with no P-Value inflection

This workflow execute peak caller and QC from ChIP-exo for single-end samples with no P-Value inflection

 https://gitlab.com/r78v10a07/cwl-workflow.git

Path: workflows/ChIP-exo/peak_caller-SE-no_inflection.cwl

Branch/Commit ID: master
workflow graph SSU-from-tablehits.cwl

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

Path: tools/SSU-from-tablehits.cwl

Branch/Commit ID: 56dafa4
workflow graph preprocessor_for_oxog.cwl

This workflow will perform preprocessing steps on VCFs for the OxoG/Variantbam/Annotation workflow.

https://github.com/icgc-tcga-pancancer/pcawg-oxog-filter.git

Path: preprocessor_for_oxog.cwl

Branch/Commit ID: master
workflow graph ocrevaluation-performance-test-files-wf-pack.cwl#ocrevaluation-performance-wf.cwl

https://github.com/KBNLresearch/ochre.git

Path: ochre/cwl/ocrevaluation-performance-test-files-wf-pack.cwl

Branch/Commit ID: master

Packed ID: ocrevaluation-performance-wf.cwl
workflow graph Whole Genome Sequence processing workflow scattered over samples

<p>This is a “real-world” workflow example for processing Next Generation Sequencing (NGS) Whole Genome Sequence (WGS) data.</p> <p>You can learn more and run this workflow yourself by going through the <a href=\"https://doc.arvados.org/main/user/tutorials/wgs-tutorial.html\">Processing Whole Genome Sequences</a> walkthrough in the Arvados user guide.</p> <p>The steps of this workflow include:</p> <ol> <li>Check of fastq quality using FastQC</li> <li>Local alignment using BWA-MEM</li> <li>Variant calling in parallel using GATK Haplotype Caller</li> <li>Generation of an HTML report comparing variants against ClinVar archive</li> </ol> <p>The primary input parameter is the <b>Directory of paired FASTQ files</b>, which should contain paired FASTQ files (suffixed with _1 and _2) to be processed. The workflow scatters over the samples to process them in parallel.</p> <p>The remaining parameters are reference data used by various tools in the pipeline.</p>

https://github.com/arvados/arvados-tutorial.git

Path: WGS-processing/cwl/wgs-processing-wf.cwl

Branch/Commit ID: main
workflow graph count-lines7-wf.cwl

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

Path: tests/count-lines7-wf.cwl

Branch/Commit ID: main
workflow graph canine_lancet_module.cwl

https://github.com/d3b-center/canine-dev.git

Path: subworkflows/canine_lancet_module.cwl

Branch/Commit ID: 462aaebbd442e84ea101b45b716df0174b88512e
workflow graph tt_kmer_compare_wnode

Pairwise comparison

 https://github.com/ncbi/pgap.git

Path: task_types/tt_kmer_compare_wnode.cwl

Branch/Commit ID: dev
workflow graph md5-validate.cwl

https://github.com/4dn-dcic/pipelines-cwl.git

Path: cwl_awsem_v1/md5-validate.cwl

Branch/Commit ID: dev2
workflow graph wf_calculate_Models.cwl

https://github.com/idaks/cwl_modeling.git

Path: yw_cwl_modeling/yw_cwl_parser_old/Examples/paleocar_models/wf_calculate_Models.cwl

Branch/Commit ID: master