Explore Workflows
View already parsed workflows here or click here to add your own
| Graph | Name | Retrieved From | View |
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1st-workflow.cwl
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https://github.com/common-workflow-language/user_guide.git
Path: src/_includes/cwl/workflows/1st-workflow.cwl Branch/Commit ID: 3bfa62397cece91175f3652e2df7d8b43beb0c15 |
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wf-loadContents2.cwl
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https://github.com/common-workflow-language/cwl-v1.2.git
Path: tests/wf-loadContents2.cwl Branch/Commit ID: 5f27e234b4ca88ed1280dedf9e3391a01de12912 |
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count-lines11-null-step-wf.cwl
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https://github.com/common-workflow-language/cwl-v1.2.git
Path: tests/count-lines11-null-step-wf.cwl Branch/Commit ID: 57baec040c99d7edef8242ef51b5470b1c82d733 |
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umi duplex alignment workflow
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/duplex_alignment.cwl Branch/Commit ID: 31a179d7a2f2ac86bfd7fcc4dc79832c3739ae76 |
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mut.cwl
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https://github.com/common-workflow-language/cwltool.git
Path: tests/wf/mut.cwl Branch/Commit ID: e8b3565a008d95859fc44227987a54e6a53a8c29 |
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umi molecular alignment workflow
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https://github.com/tmooney/cancer-genomics-workflow.git
Path: definitions/subworkflows/molecular_qc.cwl Branch/Commit ID: 0db1a5f1ceedd4416ac550787c27b99c87dbe985 |
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bam-bedgraph-bigwig.cwl
Workflow converts input BAM file into bigWig and bedGraph files. Input BAM file should be sorted by coordinates (required by `bam_to_bedgraph` step). If `split` input is not provided use true by default. Default logic is implemented in `valueFrom` field of `split` input inside `bam_to_bedgraph` step to avoid possible bug in cwltool with setting default values for workflow inputs. `scale` has higher priority over the `mapped_reads_number`. The last one is used to calculate `-scale` parameter for `bedtools genomecov` (step `bam_to_bedgraph`) only in a case when input `scale` is not provided. All logic is implemented inside `bedtools-genomecov.cwl`. `bigwig_filename` defines the output name only for generated bigWig file. `bedgraph_filename` defines the output name for generated bedGraph file and can influence on generated bigWig filename in case when `bigwig_filename` is not provided. All workflow inputs and outputs don't have `format` field to avoid format incompatibility errors when workflow is used as subworkflow. |
https://github.com/datirium/workflows.git
Path: tools/bam-bedgraph-bigwig.cwl Branch/Commit ID: 42dc4f70b117e78785b82865ec4c4b941ac1c259 |
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exome alignment and somatic variant detection for cle purpose
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https://github.com/genome/analysis-workflows.git
Path: definitions/pipelines/somatic_exome_cle.cwl Branch/Commit ID: 25eab0390f6866ce491b44c89d9e0435d228ab6f |
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meds-wf.cwl
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https://github.com/EiffL/metacal-pipeline.git
Path: tools/meds-wf.cwl Branch/Commit ID: b5f3eaf27bfe135dbe009a05f36bf031fd227c81 |
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count-lines11-wf.cwl
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https://github.com/common-workflow-language/cwltool.git
Path: cwltool/schemas/v1.0/v1.0/count-lines11-wf.cwl Branch/Commit ID: e2ec740fccc81ff7071dcd607c5c158fbc0dfb90 |
