Explore Workflows

sam to fastq workflow

https://github.com/CRI-iAtlas/iatlas-workflows.git

Path: Sam_to_Fastq/workflow/sam_to_fastq_workflow.cwl

Branch/Commit ID: d94151d3aaadee96b52f27e4ce84692c0366fe75

https://github.com/EBI-Metagenomics/pipeline-v5.git

Path: workflows/subworkflows/amplicon/ITS-wf.cwl

Branch/Commit ID: a83ee883bb3c7480010fa952939fac771491ddf4

Example CWL workflow that uses some advanced features

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

Path: cwl/example_workflow.cwl

Branch/Commit ID: 59b69eed7ffefcffd81313ec8ffb84c0d716b933

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

Path: workflows/marianas/collapsed_fastq_to_bam.cwl

Branch/Commit ID: b0f226a9ac5152f3afe0d38c8cd54aa25b8b01cf

https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git

Path: structuralvariants/cwl/workflow.cwl

Branch/Commit ID: b62c7bfcf5eb7ac3c1ed06879200fdf5db947e4b

https://github.com/bcbio/bcbio_validation_workflows.git

Path: SGDP-recall-CGC/SGDP-recall-cgc/main-SGDP-recall.cwl

Branch/Commit ID: af9a5621efcb44c249697d6df071fe4defe389ac

https://github.com/tmooney/cancer-genomics-workflow.git

Path: definitions/subworkflows/strelka_process_vcf.cwl

Branch/Commit ID: 0db1a5f1ceedd4416ac550787c27b99c87dbe985

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

Path: tests/record-in-secondaryFiles-missing-wf.cwl

Branch/Commit ID: a5073143db4155e05df8d2e7eb59d9e62acd65a5

This workflow aligns multiple samples using STAR for paired-end samples to be used in circRNA pipeline

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

Path: workflows/Alignments/star-alignment-circRNA-multiple-samples-default.cwl

Branch/Commit ID: 1b1cb5bbbe53a2dd5d7de7cdbff19c1bdbe23a49

A workflow including the tool(s) Comet, idconvert, mzRecal, Comet, PeptideProphet, ProteinProphet.

https://github.com/Workflomics/domain-annotations.git

Path: WombatP_tools/workflow_example_prot.cwl

Branch/Commit ID: 00693ced2df1e35a0aba01995bb24538613de9b5