Workflow: Non-Coding Bacterial Genes
Fetched 2023-01-04 10:55:15 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:
https://raw.githubusercontent.com/ncbi/pgap/1a6b9e5dea09caa0debbaff30ca39005dfa5e4d4/LICENSE.md
Note that the tools invoked by the workflow may have separate licenses.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| go | Boolean[] | ||
| seqids | File | ||
| taxon_db | File | ||
| asn_cache | Directory | ||
| model_path | File | ||
| rfam_stockholm | File | ||
| 16s_blastdb_dir | Directory | ||
| 23s_blastdb_dir | Directory | ||
| rfam_amendments | File |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| annot_ribo_operons |
../progs/annot_ribo_operons.cwl
(CommandLineTool)
|
annot_ribo_operons | |
| bacterial_noncoding_5S |
wf_gcmsearch.cwl
(Workflow)
|
Run genomic CMsearch (5S rRNA) | |
| bacterial_noncoding_16S |
wf_blastn.cwl
(Workflow)
|
BLAST against rRNA db | |
| bacterial_noncoding_23S |
wf_blastn.cwl
(Workflow)
|
BLAST against rRNA db |
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| annotations_5s | File | ||
| annotations_16s | File | ||
| annotations_23s | File |
Permalink:
https://w3id.org/cwl/view/git/1a6b9e5dea09caa0debbaff30ca39005dfa5e4d4/bacterial_noncoding/wf_bacterial_noncoding.cwl
