Workflow: Initial CNVkit analysis
Fetched 2023-08-23 14:01:21 GMT
Verified with cwltool version 3.1.20230201224320
- Selected
- |
- Default Values
- Nested Workflows
- Tools
- Inputs/Outputs
Unknown workflow license, check
source repository.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| bams | String[] | ||
| targets | File | ||
| anti_targets | File | ||
| reference_coverage | File |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| cna_segments |
../tools/cnvkit_segment.cwl
(CommandLineTool)
|
CNVkit segment | |
| fix_coverage |
../tools/cnvkit_fix.cwl
(CommandLineTool)
|
CNVkit fix | |
| target_sample_coverage |
../tools/cnvkit_coverage.cwl
(CommandLineTool)
|
CNVkit coverage | |
| antitarget_sample_coverage |
../tools/cnvkit_coverage.cwl
(CommandLineTool)
|
CNVkit coverage |
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| fixed_cnr | File[] | ||
| segmented | File[] | ||
| target_coverage | File[] | ||
| antitarget_coverage | File[] |
Permalink:
https://w3id.org/cwl/view/git/b533c88cb39e0d03e9fd65fad5e5caa266524d9d/subworkflows/cnvkit_initial_analysis.cwl
