Workflow: functional_annotation.cwl
Fetched 2025-07-05 21:46:29 GMT
Verified with cwltool version 3.1.20230201224320
- Selected
- |
- Default Values
- Nested Workflows
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- Inputs/Outputs
This workflow is Open Source and may be reused according to the terms of:
Apache License 2.0
Note that the tools invoked by the workflow may have separate licenses.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| name_ips | String | ||
| EggNOG_db | String | ||
| name_hmmer | String | ||
| HMM_database | String | ||
| chunk_size_IPS | Integer | ||
| chunk_size_hmm | Integer | ||
| EggNOG_data_dir | String | ||
| EggNOG_diamond_db | String | ||
| chunk_size_eggnog | Integer | ||
| HMM_omit_alignment | Boolean | ||
| CGC_predicted_proteins | File | ||
| InterProScan_databases | String | ||
| HMM_gathering_bit_score | Boolean | ||
| InterProScan_applications | String[] | ||
| InterProScan_outputFormat | String[] |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| eggnog | First scatter to find seed orthologs, unite them, find annotations | ||
| run_IPS |
../chunking-subwf-IPS.cwl
(Workflow)
|
||
| run_hmmer |
../chunking-subwf-hmmsearch.cwl
(Workflow)
|
||
| split_seqs |
/cwl/view/git/4b98d8bf882bc96d924b5d2d4e6d9c188fa7b273/tools/chunks/protein_chunker.cwl
(CommandLineTool)
|
split FAA by number of records |
based upon code by Maxim Scheremetjew, EMBL-EBI |
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| hmm_result | File | ||
| ips_result | File | ||
| eggnog_orthologs | File | ||
| eggnog_annotations | File |
Permalink:
https://w3id.org/cwl/view/git/4b98d8bf882bc96d924b5d2d4e6d9c188fa7b273/workflows/subworkflows/assembly/functional_annotation.cwl
