Workflow: panel of normals workflow
Fetched 2023-01-04 23:09:02 GMT
Verified with cwltool version 3.1.20221201130942
- Selected
- |
- Default Values
- Nested Workflows
- Tools
- 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 |
|---|---|---|---|
| minimumN | Integer | ||
| dbsnp_vcf | File | ||
| reference | File | ||
| cosmic_vcf | File | ||
| tumor_bams | File[] | ||
| interval_list | File | ||
| scatter_count | Integer | ||
| artifact_detection_mode | Boolean |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| mutect |
../mutect/workflow.cwl
(Workflow)
|
mutect parallel workflow | |
| combine_variants |
combine_variants.cwl
(CommandLineTool)
|
CombineVariants (GATK 3.6) |
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| pon_vcf | File |
Permalink:
https://w3id.org/cwl/view/git/4cded2c595b2ff83046729cd230f5ad34be3137d/panel_of_normals/workflow.cwl
