Explore Workflows
View already parsed workflows here or click here to add your own
| Graph | Name | Retrieved From | View |
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scatter GATK HaplotypeCaller over intervals
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/gatk_haplotypecaller_iterator.cwl Branch/Commit ID: ae79bc51e8b502164dbe74ea3b068d6d4d36a1f8 |
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Subworkflow that runs cnvkit in single sample mode and returns a vcf file
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https://github.com/genome/analysis-workflows.git
Path: definitions/subworkflows/cnvkit_single_sample.cwl Branch/Commit ID: ae79bc51e8b502164dbe74ea3b068d6d4d36a1f8 |
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PGAP Pipeline
PGAP pipeline for external usage, powered via containers |
https://github.com/ncbi/pgap.git
Path: wf_common.cwl Branch/Commit ID: 96dbb414d287f4382e2d477fb1851aeaa5f14f2b |
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bgzip and index VCF
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https://github.com/tmooney/cancer-genomics-workflow.git
Path: definitions/subworkflows/bgzip_and_index.cwl Branch/Commit ID: 0db1a5f1ceedd4416ac550787c27b99c87dbe985 |
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varscan somatic workflow
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https://github.com/tmooney/cancer-genomics-workflow.git
Path: definitions/subworkflows/varscan.cwl Branch/Commit ID: 0db1a5f1ceedd4416ac550787c27b99c87dbe985 |
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fp_filter workflow
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https://github.com/tmooney/cancer-genomics-workflow.git
Path: definitions/subworkflows/fp_filter.cwl Branch/Commit ID: 0db1a5f1ceedd4416ac550787c27b99c87dbe985 |
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Unaligned to aligned BAM
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https://github.com/tmooney/cancer-genomics-workflow.git
Path: definitions/subworkflows/align.cwl Branch/Commit ID: 0db1a5f1ceedd4416ac550787c27b99c87dbe985 |
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adapter for sequence_align_and_tag
Some workflow engines won't stage files in our nested structure, so parse it out here |
https://github.com/tmooney/cancer-genomics-workflow.git
Path: definitions/subworkflows/sequence_align_and_tag_adapter.cwl Branch/Commit ID: 0db1a5f1ceedd4416ac550787c27b99c87dbe985 |
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HS Metrics workflow
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https://github.com/tmooney/cancer-genomics-workflow.git
Path: definitions/subworkflows/hs_metrics.cwl Branch/Commit ID: 0db1a5f1ceedd4416ac550787c27b99c87dbe985 |
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Add snv and indel bam-readcount files to a vcf
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https://github.com/tmooney/cancer-genomics-workflow.git
Path: definitions/subworkflows/vcf_readcount_annotator.cwl Branch/Commit ID: 0db1a5f1ceedd4416ac550787c27b99c87dbe985 |
