Workflow: exomeseq-gatk4-03-organizedirectories.cwl
Fetched 2023-01-10 19:30:59 GMT
Verified with cwltool version 3.1.20221201130942
- Selected
- |
- Default Values
- Nested Workflows
- Tools
- Inputs/Outputs
This workflow is Open Source and may be reused according to the terms of:
MIT License
Note that the tools invoked by the workflow may have separate licenses.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| raw_variants | File[] | ||
| trim_reports | d9f3d81ccb64ee8aed81b3885f4263f9[] | ||
| fastqc_reports | ac175b7668b4f0ba8e864a616e05732e[] | ||
| bams_recalibrated | File[] | ||
| bams_markduplicates | File[] |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| org_raw_variants |
../tools/files-to-directory.cwl
(ExpressionTool)
|
Moves an array of Files into a named directory | |
| org_trim_reports |
../tools/file-pairs-to-directory.cwl
(ExpressionTool)
|
Moves an array of File pairs into a named directory | |
| org_fastqc_reports |
../tools/file-pairs-to-directory.cwl
(ExpressionTool)
|
Moves an array of File pairs into a named directory | |
| org_bams_recalibrated |
../tools/files-to-directory.cwl
(ExpressionTool)
|
Moves an array of Files into a named directory | |
| org_bams_markduplicates |
../tools/files-to-directory.cwl
(ExpressionTool)
|
Moves an array of Files into a named directory |
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| raw_variants_dir | Directory | ||
| trim_reports_dir | Directory | ||
| fastqc_reports_dir | Directory | ||
| bams_recalibrated_dir | Directory | ||
| bams_markduplicates_dir | Directory |
Permalink:
https://w3id.org/cwl/view/git/e82f3a71183048dd6700ec6725ee526ac1a95238/subworkflows/exomeseq-gatk4-03-organizedirectories.cwl
