Explore Workflows

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

Graph Name Retrieved From View
workflow graph run_test.cwl

https://github.com/rosafilgueira/DARE_SEISMO.git

Path: specfem3d/specfem3d_test_input_cwl/run_test.cwl

Branch/Commit ID: master
workflow graph realignment.cwl

https://github.com/mskcc/roslin-cwl.git

Path: modules/pair/realignment.cwl

Branch/Commit ID: master
workflow graph collate_unique_SSU_headers.cwl

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

Path: tools/collate_unique_SSU_headers.cwl

Branch/Commit ID: d3b8e45
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 tRNA_selection.cwl

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

Path: tools/tRNA_selection.cwl

Branch/Commit ID: master
workflow graph gatk4W.cwl

Author: AMBARISH KUMAR er.ambarish@gmail.com & ambari73_sit@jnu.ac.in This is a proposed standard operating procedure for genomic variant detection using GATK4. It is hoped to be effective and useful for getting SARS-CoV-2 genome variants. It uses Illumina RNASEQ reads and genome sequence.

https://github.com/ambarishK/bio-cwl-tools.git

Path: gatk4W.cwl

Branch/Commit ID: release
workflow graph collate_unique_SSU_headers.cwl

https://github.com/EBI-Metagenomics/ebi-metagenomics-cwl.git

Path: tools/collate_unique_SSU_headers.cwl

Branch/Commit ID: 135976d
workflow graph Hello World

Outputs a message using echo

 https://github.com/common-workflow-library/legacy.git

Path: workflows/hello/hello.cwl

Branch/Commit ID: master
workflow graph md5sum-workflow.cwl

https://github.com/dockstore-testing/md5sum-checker.git

Path: md5sum/md5sum-workflow.cwl

Branch/Commit ID: develop
workflow graph portal-workflow.cwl

https://github.com/mskcc/pluto-cwl.git

Path: cwl/portal-workflow.cwl

Branch/Commit ID: master