Workflow: lobSTR-workflow.cwl
Fetched 2023-01-09 19:34:53 GMT
Verified with cwltool version 3.1.20221201130942
- Selected
- |
- Default Values
- Nested Workflows
- Tools
- Inputs/Outputs
Requires:
This workflow is Open Source and may be reused according to the terms of:
Apache License 2.0
Note that the tools invoked by the workflow may have separate licenses.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| p1 | File[] (Optional) | ||
| p2 | File[] (Optional) | ||
| rg-lib | String | ||
| strinfo | File | ||
| reference | File | ||
| rg-sample | String | ||
| noise_model | File | ||
| output_prefix | String |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| lobSTR |
lobSTR-tool.cwl
(CommandLineTool)
|
lobSTR | |
| samsort |
samtools-sort.cwl
(CommandLineTool)
|
||
| samindex |
samtools-index.cwl
(CommandLineTool)
|
||
| allelotype |
allelotype.cwl
(CommandLineTool)
|
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| bam | File | ||
| vcf | File | ||
| bam_stats | File | ||
| vcf_stats | File |
Permalink:
https://w3id.org/cwl/view/git/2e0114d3a1d9c0434e0334a21fa02da682d13d46/src/test/resources/cwl/lobstr-v1/lobSTR-workflow.cwl
