Workflow: RD_Connect
Fetched 2023-01-10 18:26:30 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 |
|---|---|---|---|
| chromosome | String | ||
| fastq_files | File[] | ||
| sample_name | String | ||
| readgroup_str | String | ||
| known_sites_file | File | ||
| reference_genome | File[] | ||
| known_indels_file | File |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| gunzip |
gunzip.cwl
(CommandLineTool)
|
||
| bwa_mem |
bwa-mem.cwl
(CommandLineTool)
|
||
| bwa_index |
bwa-index.cwl
(CommandLineTool)
|
||
| unzipped_known_sites |
gunzip_known_sites.cwl
(CommandLineTool)
|
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| gvcf | File | ||
| metrics | File |
Permalink:
https://w3id.org/cwl/view/git/5d5ade353996943c82b5f70b13d2b88ef0071c5e/cwl-workflows/demonstrator/workflow_localfiles_formatted.cwl
