Explore Workflows

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

Graph Name Retrieved From View
workflow graph Varscan Workflow

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

Path: varscan/workflow.cwl

Branch/Commit ID: 202b43b7449485a317c857d62ca7d39196764e65
workflow graph cmsearch-multimodel.cwl

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

Path: workflows/cmsearch-multimodel.cwl

Branch/Commit ID: 583307878ab83c5845c897f03db920ae8e1929e2
workflow graph exome alignment and germline variant detection, with optitype for HLA typing

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

Path: definitions/pipelines/germline_exome_hla_typing.cwl

Branch/Commit ID: 9cbf2a483e1b9e4cdb8e2564be27a9e64fc1169e
workflow graph analysis-workflow.cwl

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

Path: cwl/analysis-workflow.cwl

Branch/Commit ID: 5cad957fec135aa55ca8d588372db0557ca1cad5
workflow graph STAR-Alignment-PE

This workflow aligns the fastq files using STAR for no spliced genomes

 https://github.com/ncbi/cwl-ngs-workflows-cbb.git

Path: workflows/Alignments/star-alignment-nosplice.cwl

Branch/Commit ID: dde32ff6c8e653a4e6b93316f28737706d5ec367
workflow graph cram_to_bam workflow

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

Path: definitions/subworkflows/cram_to_bam_and_index.cwl

Branch/Commit ID: 18600518ce6539a2e29c1707392a4c5da5687fa3
workflow graph merge-bam-parallel

This workflow merge BAM files per condition in parallel

 https://github.com/ncbi/cwl-ngs-workflows-cbb.git

Path: workflows/File-formats/merge-bam-parallel.cwl

Branch/Commit ID: 92c23571bd5925c3d33678bc944a8546597cf3a3
workflow graph taxcheck.cwl

Perform taxonomic identification tasks on an input genome

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

Path: taxcheck.cwl

Branch/Commit ID: 4b73bfeb967ee9f57a0410276f7c39e784f0846f
workflow graph 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>

https://git.wur.nl/unlock/cwl.git

Path: cwl/workflows/workflow_metagenomics_binning.cwl

Branch/Commit ID: 60fafdfbec9b39c860945ef4634e0c28cb5e976c
workflow graph portal-workflow.cwl

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

Path: cwl/portal-workflow.cwl

Branch/Commit ID: 5cad957fec135aa55ca8d588372db0557ca1cad5