Explore Workflows
View already parsed workflows here or click here to add your own
| Graph | Name | Retrieved From | View |
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io-any-wf-1.cwl
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https://github.com/common-workflow-language/cwl-v1.1.git
Path: tests/io-any-wf-1.cwl Branch/Commit ID: master |
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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/mr-c/datirium-workflows.git
Path: tools/bam-bedgraph-bigwig.cwl Branch/Commit ID: license_test |
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Raw sequence data to BQSR
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https://github.com/tmooney/cancer-genomics-workflow.git
Path: definitions/subworkflows/sequence_to_bqsr.cwl Branch/Commit ID: downsample_and_recall |
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bgzip and index VCF
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https://github.com/apaul7/cancer-genomics-workflow.git
Path: definitions/subworkflows/bgzip_and_index.cwl Branch/Commit ID: low-vaf |
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scatter-wf2.cwl
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https://github.com/common-workflow-language/common-workflow-language.git
Path: v1.0/v1.0/scatter-wf2.cwl Branch/Commit ID: master |
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CWL-RNAseq.cwl
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https://github.com/junyussh/RunningWorkflows-on-the-GoogleCloud.git
Path: CWL-RNAseq/CWL-RNAseq.cwl Branch/Commit ID: master |
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inspect_solutions.cwl
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https://github.com/peijin94/LOFAR-Sun-tools.git
Path: utils/IM/LINC/lincSun/steps/inspect_solutions.cwl Branch/Commit ID: master |
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Runs InterProScan on batches of sequences to retrieve functional annotations.
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https://github.com/EBI-Metagenomics/workflow-is-cwl.git
Path: workflows/InterProScan-v5-chunked-wf.cwl Branch/Commit ID: master |
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batch-preprocess-ont.cwl
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https://github.com/fjrmoreews/cwl-workflow-SARS-CoV-2.git
Path: PreProcessing/batch-preprocess-ont.cwl Branch/Commit ID: master |
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final_filtering
Final filtering |
https://gitlab.bsc.es/lrodrig1/structuralvariants_poc.git
Path: structuralvariants/cwl/abstract_operations/subworkflows/final_filtering.cwl Branch/Commit ID: master |
