Explore Workflows
View already parsed workflows here or click here to add your own
| Graph | Name | Retrieved From | View |
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umi molecular alignment fastq workflow
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https://github.com/genome/analysis-workflows.git
Path: definitions/pipelines/umi_molecular_alignment.cwl Branch/Commit ID: f401b02285f30de1c12ac2859134099fe04be33f |
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deal_with_functional_annotation.cwl
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https://github.com/EBI-Metagenomics/pipeline-v5.git
Path: workflows/subworkflows/assembly/deal_with_functional_annotation.cwl Branch/Commit ID: 49ae257c560e71d2946290d1705b2912fd81f76f |
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dynresreq-workflow-stepdefault.cwl
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https://github.com/common-workflow-language/cwl-v1.2.git
Path: tests/dynresreq-workflow-stepdefault.cwl Branch/Commit ID: 4fa45edd0c445c1cff7dee986d69a31cdd5e5dff |
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scatter-wf4.cwl#main
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https://github.com/common-workflow-language/cwl-v1.2.git
Path: tests/scatter-wf4.cwl Branch/Commit ID: 4fa45edd0c445c1cff7dee986d69a31cdd5e5dff Packed ID: main |
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sum-wf.cwl
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https://github.com/common-workflow-language/cwl-v1.2.git
Path: tests/sum-wf.cwl Branch/Commit ID: 4fa45edd0c445c1cff7dee986d69a31cdd5e5dff |
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output_reference_workflow_input.cwl
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https://github.com/common-workflow-language/cwl-v1.2.git
Path: tests/output_reference_workflow_input.cwl Branch/Commit ID: 4fa45edd0c445c1cff7dee986d69a31cdd5e5dff |
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rnaseq-pe-dutp.cwl
Runs RNA-Seq BioWardrobe basic analysis with strand specific pair-end data file. |
https://github.com/Barski-lab/workflows.git
Path: workflows/rnaseq-pe-dutp.cwl Branch/Commit ID: 4723ce567089dc9ee51e067b813c5b527a3da16a |
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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/Barski-lab/workflows.git
Path: tools/bam-bedgraph-bigwig.cwl Branch/Commit ID: 50959c0cceb0c57b4290900c5e89eac1127d3e2f |
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record-output-wf_v1_0.cwl
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https://github.com/common-workflow-language/cwl-utils.git
Path: testdata/record-output-wf_v1_0.cwl Branch/Commit ID: 88ad2a6ad70d7124b094e0cb3e5f72b78078c7e2 |
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Identifies non-coding RNAs using Rfams covariance models
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https://github.com/EBI-Metagenomics/pipeline-v5.git
Path: workflows/subworkflows/cmsearch-condition.cwl Branch/Commit ID: 49ae257c560e71d2946290d1705b2912fd81f76f |
