Workflow: facets
Fetched 2025-02-27 11:04:07 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 |
|---|---|---|---|
| genome | String | ||
| tumor_bam | File | ||
| normal_bam | File | ||
| facets_cval | Integer | ||
| facets_pcval | Integer | ||
| tumor_sample_name | String |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| facets |
cmo-facets.doFacets/1.5.6/cmo-facets.doFacets.cwl
(CommandLineTool)
|
cmo-facets-doFacets |
Run FACETS on tumor-normal SNP read counts generated using cmo_snp-pileup |
| snp_pileup |
cmo-snp-pileup/0.1.1/cmo-snp-pileup.cwl
(CommandLineTool)
|
htstools-snp-pileup |
run snp-pileup |
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| facets_out_output | File[] | ||
| facets_png_output | File[] | ||
| facets_seg_output | File[] | ||
| facets_rdata_output | File[] | ||
| facets_counts_output | File | ||
| facets_txt_output_hisens | File | ||
| facets_txt_output_purity | File |
Permalink:
https://w3id.org/cwl/view/git/4e0f50f76ff0dfc9c5d9b4a92e4f4ba0fdc9f402/setup/cwl/facets.cwl
