Explore Workflows
View already parsed workflows here or click here to add your own
| Graph | Name | Retrieved From | View |
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basename-fields-test.cwl
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https://github.com/common-workflow-language/cwltool.git
Path: cwltool/schemas/v1.0/v1.0/basename-fields-test.cwl Branch/Commit ID: 62ae25772a8e98b6591554882daa3f3758079fca |
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sec-wf.cwl
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https://github.com/common-workflow-language/cwltool.git
Path: tests/wf/sec-wf.cwl Branch/Commit ID: e62a8406b448220969ee172699f61c5ca379d60c |
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example_workflow.cwl
Example CWL workflow that uses some advanced features |
https://github.com/mskcc/pluto-cwl.git
Path: cwl/example_workflow.cwl Branch/Commit ID: 2a88d5c2d139ff817b21b480ccf9c1cd7139b00c |
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count-lines1-wf.cwl
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https://github.com/common-workflow-language/cwltool.git
Path: cwltool/schemas/v1.0/v1.0/count-lines1-wf.cwl Branch/Commit ID: beab66d649dd3ee82a013322a5e830875e8556ba |
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revsort.cwl
Reverse the lines in a document, then sort those lines. |
https://github.com/common-workflow-language/cwltool.git
Path: cwltool/schemas/v1.0/v1.0/revsort.cwl Branch/Commit ID: 1cf9d36386f550159bfeeb751763167df5022234 |
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xenbase-chipseq-pe.cwl
XenBase workflow for analysing ChIP-Seq paired-end data |
https://github.com/datirium/workflows.git
Path: workflows/xenbase-chipseq-pe.cwl Branch/Commit ID: cb5e5b8563be4977e9f2babc14fe084faa234847 |
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exome alignment and germline variant detection
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https://github.com/genome/analysis-workflows.git
Path: definitions/pipelines/germline_exome.cwl Branch/Commit ID: ddd748516b25256a461ea9277303406fa2759b00 |
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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: 2a88d5c2d139ff817b21b480ccf9c1cd7139b00c |
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cache_asnb_entries
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https://github.com/ncbi/pgap.git
Path: task_types/tt_cache_asnb_entries.cwl Branch/Commit ID: ea8c2aea64cab2241e02f4cb60ca9ca7593dfa58 |
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mut2.cwl
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https://github.com/common-workflow-language/cwltool.git
Path: tests/wf/mut2.cwl Branch/Commit ID: 7dec97bb8f0bc2d9e9eb710faf41f2e98cc7cdda |
