Workflow: module-1-2-chunk
Fetched 2023-01-12 17:30:18 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 | 0807a8977e08b1e097300be88c1a0af9[] | ||
| fastq2 | 8c17b10e23d15a3caf4f6b8ae68153cb[] | ||
| genome | String | ||
| hapmap | File | ||
| refseq | File | ||
| adapter | String[] | ||
| tmp_dir | String | ||
| adapter2 | String[] | ||
| add_rg_CN | String[] | ||
| add_rg_ID | dc7ffcf263cedf409edd89ac31577eb6[] | ||
| add_rg_LB | String[] | ||
| add_rg_PL | String[] | ||
| add_rg_PU | 30f825b8a8ffc99e950210cab39753ae[] | ||
| 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 | 54518c161ba5c7f61956dfd22601cb46[] | ||
| clstats2 | 255e6917b3d90a8f7fb5769355d2bd13[] | ||
| covint_bed | File | ||
| md_metrics | File[] | ||
| covint_list | File |
Permalink:
https://w3id.org/cwl/view/git/4e0f50f76ff0dfc9c5d9b4a92e4f4ba0fdc9f402/setup/cwl/module-1-2.chunk.cwl
