Explore Workflows
View already parsed workflows here or click here to add your own
| Graph | Name | Retrieved From | View |
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workflow-blast-clustalo-phylogeny.cwl
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https://github.com/ebi-wp/webservice-cwl.git
Path: workflows/workflow-blast-clustalo-phylogeny.cwl Branch/Commit ID: master |
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scatter_tail.cwl
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https://github.com/giannisdoukas/CWLJNIKernel.git
Path: tests/cwl/scatter_tail.cwl Branch/Commit ID: master |
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trick_revsort.cwl
Reverse the lines in a document, then sort those lines. |
https://github.com/common-workflow-language/cwltool.git
Path: tests/wf/trick_revsort.cwl Branch/Commit ID: a3d565bf8e630101d25d31804cfbceb0a0ba28de |
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etl.cwl
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https://github.com/NCI-GDC/gdc-dnaseq-cwl.git
Path: workflows/dnaseq/etl.cwl Branch/Commit ID: 1.1 |
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wf-variantcall.cwl
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https://github.com/FarahZKhan/bcbio_test_cwlprov.git
Path: somatic/somatic-workflow/wf-variantcall.cwl Branch/Commit ID: master |
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facets-workflow.cwl
Workflow for running Facets-suite on a set of tumor normal pairs This workflow scatters over all the pairs in the input JSON to run all samples in parallel Input JSON format ----------------- { \"pairs\": [ { \"tumor_bam\": { \"class\": \"File\", \"path\": \"/test_data/bam/Tumor1.rg.md.abra.printreads.bam\" }, \"normal_bam\": { \"class\": \"File\", \"path\": \"/test_data/bam/Normal1.rg.md.abra.printreads.bam\" }, \"pair_maf\": { \"class\": \"File\", \"path\": \"/test_data/bam/Tumor1.Normal1.maf\" }, \"pair_id\": \"Tumor1.Normal1\" }, { \"tumor_bam\": { \"class\": \"File\", \"path\": \"/test_data/bam/Tumor2.rg.md.abra.printreads.bam\" }, \"normal_bam\": { \"class\": \"File\", \"path\": \"/test_data/bam/Normal2.rg.md.abra.printreads.bam\" }, \"pair_maf\": { \"class\": \"File\", \"path\": \"/test_data/bam/Tumor2.Normal2.maf\" }, \"pair_id\": \"Tumor2.Normal2\" } ] } Output format ------------- output └── facets-suite ├── Tumor1.Normal1.arm_level.txt ├── Tumor1.Normal1.gene_level.txt ├── Tumor1.Normal1_hisens.ccf.maf ├── Tumor1.Normal1_hisens.rds ├── Tumor1.Normal1_hisens.seg ├── Tumor1.Normal1_purity.rds ├── Tumor1.Normal1_purity.seg ├── Tumor1.Normal1.qc.txt ├── Tumor1.Normal1.snp_pileup.gz ├── Tumor1.Normal1.txt ├── Tumor2.Normal2.arm_level.txt ├── Tumor2.Normal2.gene_level.txt ├── Tumor2.Normal2_hisens.ccf.maf ├── Tumor2.Normal2_hisens.rds ├── Tumor2.Normal2_hisens.seg ├── Tumor2.Normal2_purity.rds ├── Tumor2.Normal2_purity.seg ├── Tumor2.Normal2.qc.txt ├── Tumor2.Normal2.snp_pileup.gz ├── Tumor2.Normal2.txt └── logs ├── success └── failed |
https://github.com/mskcc/pluto-cwl.git
Path: cwl/facets-workflow.cwl Branch/Commit ID: master |
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linc_calibrator.cwl
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https://git.astron.nl/RD/LINC.git
Path: workflows/linc_calibrator.cwl Branch/Commit ID: master |
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count-lines2-wf.cwl
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https://github.com/common-workflow-language/cwl-v1.2.git
Path: tests/count-lines2-wf.cwl Branch/Commit ID: main |
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count-lines1-wf.cwl
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https://github.com/common-workflow-language/cwl-v1.1.git
Path: tests/count-lines1-wf.cwl Branch/Commit ID: main |
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Transcripts annotation workflow
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https://github.com/mscheremetjew/workflow-is-cwl.git
Path: workflows/TranscriptsAnnotation-wf.cwl Branch/Commit ID: assembly |
