Explore Workflows

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

Graph Name Retrieved From View
workflow graph Metagenomics workflow

Workflow for Metagenomics from raw reads to annotated bins. Steps: - workflow_quality.cwl: - FastQC (control) - fastp (trimming) - Diamond read blastx - Refseq - SEED - SAMSA2 processing - HUMAnN read annotation

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

Path: cwl/workflows/workflow_metagenomics_read_annotation.cwl

Branch/Commit ID: d6893a25b58b9b25fb76c5e060974b54d9eabc41
workflow graph pcawg_annotate_wf.cwl

This workflow will run OxoG, variantbam, and annotate. Run this as `dockstore --script --debug workflow launch --descriptor cwl --local-entry --entry ./oxog_varbam_annotate_wf.cwl --json oxog_varbam_annotat_wf.input.json `

https://github.com/icgc-tcga-pancancer/pcawg-snv-indel-annotation.git

Path: pcawg_annotate_wf.cwl

Branch/Commit ID: b4a02b7ba5733b3cc5b84b79ab0634ff9e4d1aeb
workflow graph bismark-genome-preparation.cwl

bismark genome preparation workflow

 https://github.com/pitagora-network/DAT2-cwl.git

Path: workflow/epigenome-bs-seq/bismark-genome-preparation/bismark-genome-preparation.cwl

Branch/Commit ID: 6db4456ca7314b036e59f50910654066da99772a
workflow graph strelka workflow

https://github.com/mr-c/PACT.git

Path: subworkflows/strelka_and_post_processing.cwl

Branch/Commit ID: mr-c-patch-1
workflow graph count-lines9-wf.cwl

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

Path: tests/count-lines9-wf.cwl

Branch/Commit ID: b1d4a69df86350059bd49aa127c02be0c349f7de
workflow graph wf_full_IDR_pipeline_1input_sample.cwl

This workflow essentially restructures the inputs before sending to wf_full_IDR_pipeline_1input.cwl

https://github.com/YeoLab/merge_peaks.git

Path: cwl/wf_full_IDR_pipeline_1input_sample.cwl

Branch/Commit ID: 18933d4d4b00e97a8a0d155abbebad1fdbc254aa
workflow graph Varscan Workflow

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

Path: definitions/subworkflows/varscan_germline.cwl

Branch/Commit ID: 0805e8e0d358136468e0a9f49e06005e41965adc
workflow graph group-isoforms-batch.cwl

Workflow runs group-isoforms.cwl tool using scatter for isoforms_file input. genes_filename and common_tss_filename inputs are ignored.

https://github.com/datirium/workflows.git

Path: tools/group-isoforms-batch.cwl

Branch/Commit ID: 8a92669a566589d80fde9d151054ffc220ed4ddd
workflow graph mutect parallel workflow

https://github.com/mr-c/PACT.git

Path: subworkflows/mutect.cwl

Branch/Commit ID: mr-c-patch-1
workflow graph kmer_build_tree

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

Path: task_types/tt_kmer_build_tree.cwl

Branch/Commit ID: 23f0ee7a36649ab37cabdd9277b7c82d098be79c