Workflow: module-1-2-chunk
Fetched 2023-01-12 21:58:39 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 | 2fcc295858c7ae3dd546e8164b9e1516[] | ||
| fastq2 | cd099f8ef637f6a5a8ce9e649b9c47e8[] | ||
| genome | String | ||
| hapmap | File | ||
| refseq | File | ||
| adapter | String[] | ||
| tmp_dir | String | ||
| adapter2 | String[] | ||
| add_rg_CN | String[] | ||
| add_rg_ID | 4d88d08480594719709a566f971395ff[] | ||
| add_rg_LB | String[] | ||
| add_rg_PL | String[] | ||
| add_rg_PU | 1e7d8d755c26d70254e7c6a9344c7fd6[] | ||
| 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 | 44341dc800b3b025b26f17b9b3312641[] | ||
| clstats2 | d84a3f7c55d7d4fa1ed816a923cc0db2[] | ||
| covint_bed | File | ||
| md_metrics | File[] | ||
| covint_list | File |
Permalink:
https://w3id.org/cwl/view/git/f1d57f1774b959979ed590c89e11f05b2c639d7c/setup/cwl/module-1-2.chunk.cwl
