Workflow: scatter-gatk-wf-with-interval.cwl
Fetched 2023-01-04 01:24:39 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 | ||
| sample | String | ||
| reference | File | ||
| knownsites1 | File | ||
| scattercount | String |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| merge-GVCFs |
gather-array-vcf.cwl
(CommandLineTool)
|
Gathering vcf using Picard | |
| splitintervals |
gatk-splitintervals.cwl
(CommandLineTool)
|
Creating interval files for scattering | |
| recal-haplotypecaller |
gatk-wf-with-interval.cwl
(Workflow)
|
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| gatheredgvcf | File |
Permalink:
https://w3id.org/cwl/view/git/36de0d12e1cc88d0fd7d6b401df6c6e403f8c809/WGS-processing/cwl/helper/scatter-gatk-wf-with-interval.cwl
