Workflow: SC w/ Evaluation
Fetched 2023-01-11 21:48:47 GMT
Verified with cwltool version 3.1.20221201130942
Serial combination of KnowEnG tools
- Selected
- |
- Default Values
- Nested Workflows
- Tools
- Inputs/Outputs
Unknown workflow license, check
source repository.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| pheno_file | File | Phenotypic File |
spreadsheet of phenotypic data with samples as rows and phenotypes as columns |
| genomic_file | File | Genomic Spreadsheet File |
spreadsheet of genomic data with samples as columns and genes as rows |
| network_file | File | Network File |
gene-gene network of interactions in edge format |
| num_clusters | Integer | Number of clusters |
number of subtypes to divide the samples into |
| num_bootstraps | Integer | Number of bootstraps |
number of times to sample the data and repeat the analysis |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| clus_eval |
ce_runner.cwl
(CommandLineTool)
|
ClusteringEvaluation |
Statistical tests to compare clustering results to phenotypes. |
| clustering |
sc_runner.cwl
(CommandLineTool)
|
NBS |
Network-guided stratification of genomic subtypes. |
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| ce_table_out | File | ||
| sc_clus_map_out | File |
Permalink:
https://w3id.org/cwl/view/git/8ca52a8d2b76d91b7618032a22699c5be7d12c6c/code/workflow.sc.cwl
