Explore Workflows

https://github.com/nci-gdc/gdc-dnaseq-cwl.git

Path: workflows/bamfastq_align/extract_readgroup_fastq_se_http.cwl

Branch/Commit ID: dd7f86b3cc10eb1cda07dc2fc279ba2529c8ad61

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

Path: tests/count-lines12-wf.cwl

Branch/Commit ID: 50251ef931d108c09bed2d330d3d4fe9c562b1c3

BAM filtering

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

Path: structuralvariants/subworkflows/bam_filtering.cwl

Branch/Commit ID: 0864e19de6a1732a1376c6a64a93794d2fc45d23

https://github.com/NAL-i5K/Organism_Onboarding.git

Path: gaps_or_not.cwl

Branch/Commit ID: 0ecf492419ddaa015f14a163381948c53b3deea6

https://github.com/NAL-i5K/Organism_Onboarding.git

Path: flow_download/workflow.cwl

Branch/Commit ID: 0ecf492419ddaa015f14a163381948c53b3deea6

https://github.com/ncbi/cwl-demos.git

Path: blast-pipelines/simple_two_step.cwl

Branch/Commit ID: 8c1da0a9846a9c06e19461dc05854260bfbb0d84

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/mskcc/ACCESS-Pipeline.git

Path: workflows/standard_pipeline.cwl

Branch/Commit ID: bccb338be356db83ad178be2aa9634ae86cb5211

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

Path: modules/pair/variant-calling-pair.cwl

Branch/Commit ID: 4034144f39a9428307e82efe1f812c1d37c79de5

Proteins - predict, filter, cluster, identify, annotate

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

Path: CWL/Workflows/protein-filter-annotation.workflow.cwl

Branch/Commit ID: 4e4d2e674bde612f98f2b0370445f8b2a47587df

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

Path: task_types/tt_hmmsearch_wnode_plus_qdump.cwl

Branch/Commit ID: add6b7724698694e0e72d972e2e85e1ae4e67902