Workflow: module-1-2-chunk
Fetched 2023-01-05 03:33:06 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 |
|---|---|---|---|
| dbsnp | File | ||
| group | String | ||
| cosmic | File | ||
| fastq1 | 24aef6eb66a273ff36e22c0f185d34d5[] | ||
| fastq2 | 5763c19d907e485a481047a6c9ababfd[] | ||
| genome | String | ||
| hapmap | File | ||
| refseq | File | ||
| adapter | String[] | ||
| tmp_dir | String | ||
| adapter2 | String[] | ||
| add_rg_CN | String[] | ||
| add_rg_ID | 4918f698f12be6151fef3177f80a19f9[] | ||
| add_rg_LB | String[] | ||
| add_rg_PL | String[] | ||
| add_rg_PU | 58fbea4c1ebf986540e91d3d7f358d3f[] | ||
| add_rg_SM | String[] | ||
| intervals | String (Optional) | ||
| mutect_rf | String[] | ||
| runparams | |||
| bwa_output | String[] | ||
| covariates | String[] | ||
| snps_1000g | File | ||
| mutect_dcov | Integer | ||
| abra_scratch | String | ||
| indels_1000g | File | ||
| opt_dup_pix_dist | String |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| mapping |
module-1.scatter.chunk.cwl
(Workflow)
|
module-1-scatter-chunk | |
| realignment |
module-2.cwl
(Workflow)
|
module-2 |
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| bams | File[] | ||
| clstats1 | c8e8424e5ac0dd25c4b523f3695a74f0[] | ||
| clstats2 | b3f4f886476b61164f51bb52666f33f3[] | ||
| covint_bed | File | ||
| md_metrics | File[] | ||
| covint_list | File |
Permalink:
https://w3id.org/cwl/view/git/7a2864f5af7723657406e4f3e94f92db09ec90fc/setup/cwl/module-1-2.chunk.cwl
