Explore Workflows

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

Graph Name Retrieved From View
workflow graph adapter for sequence_align_and_tag

Some workflow engines won't stage files in our nested structure, so parse it out here

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

Path: definitions/subworkflows/sequence_align_and_tag_adapter.cwl

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

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

Path: workflows/sample-workflow.cwl

Branch/Commit ID: master
workflow graph standard_bam_to_collapsed_qc.cwl

This is a workflow to go from standard bams to collapsed bams and QC results.

https://github.com/mskcc/Innovation-Pipeline.git

Path: workflows/subworkflows/standard_bam_to_collapsed_qc.cwl

Branch/Commit ID: master
workflow graph l1a_workflow.cwl

https://github.com/anilnatha/sounder-sips-application.git

Path: cwl/l1a_workflow.cwl

Branch/Commit ID: main
workflow graph sidearm.cwl

https://github.com/NCBI-Hackathons/Virus_Detection_SRA.git

Path: cwl/tools/sidearm.cwl

Branch/Commit ID: master
workflow graph bams2gvcf.woBQSR_female_chrX_wXTR.cwl

https://github.com/ddbj/human-reseq.git

Path: Workflows/bams2gvcf.woBQSR_female_chrX_wXTR.cwl

Branch/Commit ID: master
workflow graph standard_pipeline.cwl

This is a workflow to go from UMI-tagged fastqs to standard bams. It does not include collapsing, or QC It does include modules 1 and 2

https://github.com/andurill/ACCESS-Pipeline.git

Path: workflows/standard_pipeline.cwl

Branch/Commit ID: 0.0.33_dmp
workflow graph strelkaSomaticVariantCaller_v0_1_1.cwl

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

Path: janis_pipelines/wgs_somatic/cwl/tools/strelkaSomaticVariantCaller_v0_1_1.cwl

Branch/Commit ID: master
workflow graph extract_gencoll_ids

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

Path: task_types/tt_extract_gencoll_ids.cwl

Branch/Commit ID: dev
workflow graph WGS and MT analysis for fastq files

rna / protein - qc, preprocess, filter, annotation, index, abundance

 https://github.com/MG-RAST/pipeline.git

Path: CWL/Workflows/wgs-noscreen-fasta.workflow.cwl

Branch/Commit ID: master