Workflow: cram_to_bam workflow
Fetched 2023-01-10 18:11:20 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 |
|---|---|---|---|
| cram | File | ||
| reference | File |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| index_bam |
../tools/index_bam.cwl
(CommandLineTool)
|
samtools index | |
| cram_to_bam |
../tools/cram_to_bam.cwl
(CommandLineTool)
|
samtools view cram to bam |
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| bam | File |
Permalink:
https://w3id.org/cwl/view/git/35e6b3ef71b4a2a9caba1dbd5dc424a8809bcc0a/definitions/subworkflows/cram_to_bam_and_index.cwl
