Workflow: scatter GATK HaplotypeCaller over intervals
Fetched 2023-01-11 03:06:32 GMT
Verified with cwltool version 3.1.20221201130942
- Selected
- |
- Default Values
- Nested Workflows
- Tools
- Inputs/Outputs
Unknown workflow license, check
source repository.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| bam | File | ||
| dbsnp_vcf | File (Optional) | ||
| intervals | 6e53d19451504650ee675174eea3c2e7[] | ||
| reference | String | ||
| gvcf_gq_bands | String[] | ||
| contamination_fraction | String (Optional) | ||
| emit_reference_confidence | String |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| haplotype_caller |
../tools/gatk_haplotype_caller.cwl
(CommandLineTool)
|
GATK HaplotypeCaller |
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| gvcf | File[] |
Permalink:
https://w3id.org/cwl/view/git/193b8de694f262ad55c7635a603c20c124748583/definitions/subworkflows/gatk_haplotypecaller_iterator.cwl
