Workflow: mutect panel-of-normals workflow
Fetched 2023-01-04 21:09:33 GMT
Verified with cwltool version 3.1.20221201130942
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- Inputs/Outputs
This workflow is Open Source and may be reused according to the terms of:
MIT License
Note that the tools invoked by the workflow may have separate licenses.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| dbsnp_vcf | File (Optional) | ||
| reference | String | ||
| cosmic_vcf | File (Optional) | ||
| normal_bams | File[] | ||
| interval_list | File | ||
| scatter_count | Integer | ||
| normal_sample_name | String |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| mutect |
../subworkflows/mutect.cwl
(Workflow)
|
mutect parallel workflow | |
| combine |
../tools/pon_combine_variants.cwl
(CommandLineTool)
|
CombineVariants for Panel of Normals |
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| pon_vcf | File |
Permalink:
https://w3id.org/cwl/view/git/742dbafb5fb103d8578f48a0576c14dd8dae3b2a/definitions/pipelines/panel_of_normals.cwl
