Workflow: module-1-2-chunk
Fetched 2026-09-05 14:31:25 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 |
|---|---|---|---|
| dbsnp | File | ||
| group | String | ||
| cosmic | File | ||
| fastq1 | 9846f7491f4a85bd9ff5ad6b97bf0cc7[] | ||
| fastq2 | 65767ed4a445a422137ba8de2c1750c1[] | ||
| genome | String | ||
| hapmap | File | ||
| refseq | File | ||
| adapter | String[] | ||
| tmp_dir | String | ||
| adapter2 | String[] | ||
| add_rg_CN | String[] | ||
| add_rg_ID | 24c7d592364ac0b7d2effee6232b99a2[] | ||
| add_rg_LB | String[] | ||
| add_rg_PL | String[] | ||
| add_rg_PU | 1d2c564acc69d3585b2a2af3f03d82e0[] | ||
| 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 | c07b0b275200b836b5f5134eda60a9c7[] | ||
| clstats2 | 337bdc80edc23f096cab954ab9cf55b7[] | ||
| covint_bed | File | ||
| md_metrics | File[] | ||
| covint_list | File |
Permalink:
https://w3id.org/cwl/view/git/bffe2339db0b056a61514d75773f793920b6750e/setup/cwl/module-1-2.chunk.cwl
