Workflow: CWL-RNAseq.cwl
Fetched 2024-11-24 08:37:07 GMT
Verified with cwltool version 3.1.20230201224320
- Selected
- |
- Default Values
- Nested Workflows
- Tools
- Inputs/Outputs
Requires:
Unknown workflow license, check
source repository.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| gtf_file | File | ||
| out_name | String | ||
| rev_file | File | ||
| fasta_file | File | ||
| bam_out_name | String | ||
| forward_file | File | ||
| hisat2_align_out | String |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| step1 |
index_build.cwl
(CommandLineTool)
|
||
| step2 |
hisat2_align.cwl
(CommandLineTool)
|
||
| step3 |
create_bam.cwl
(CommandLineTool)
|
||
| step4 |
create_transcript.cwl
(CommandLineTool)
|
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| bamFile | File | ||
| samFile | File | ||
| tsv_file | File | ||
| index_log | File | ||
| index_files | Directory | ||
| gtf_ref_file | File | ||
| gtf_transcript_file | File | ||
| hisat2_align_folder | Directory |
Permalink:
https://w3id.org/cwl/view/git/6ce4a66ad8847f3214e3ec50194c2dc202e23109/CWL-RNAseq/CWL-RNAseq.cwl
