Workflow: Dockstore.cwl
Fetched 2024-11-23 02:47:29 GMT
Verified with cwltool version 3.1.20221201130942
INTEGRATE workflow: untar, tophat align, samtools index, Integrate fusion
- Selected
- |
- Default Values
- Nested Workflows
- Tools
- Inputs/Outputs
Unknown workflow license, check
source repository.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| index | File | ||
| TUMOR_FASTQ_1 | File | ||
| TUMOR_FASTQ_2 | File |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| tar |
tar.cwl
(CommandLineTool)
|
command line: tar |
|
| tophat |
tophat.cwl
(CommandLineTool)
|
Tophat including fusion detection |
|
| integrate |
integrate.cwl
(CommandLineTool)
|
INTEGRATE: Fusion Quantification |
|
| samtools_accepted |
samtools_index.cwl
(CommandLineTool)
|
samtools index |
|
| samtools_unmapped |
samtools_index.cwl
(CommandLineTool)
|
samtools index |
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| OUTPUT | File |
Permalink:
https://w3id.org/cwl/view/git/d30bfc8382d2e5d3842523ef5410d6c915940b4b/Dockstore.cwl
