Workflow: mirzag_seed.cwl
Fetched 2023-01-12 00:56:32 GMT
Verified with cwltool version 3.1.20221201130942
- Selected
- |
- Default Values
- Nested Workflows
- Tools
- Inputs/Outputs
Unknown workflow license, check
source repository.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| input_mrna | File | ||
| input_tree | File | ||
| input_mirna | File | ||
| output_file_name | String | ||
| settings_split_by | String | ||
| input_model_with_bls | File | ||
| settings_contextLen_L | Integer | ||
| settings_contextLen_U | Integer | ||
| input_model_without_bls | File | ||
| settings_mirza_threshold | Float | ||
| input_multiple_alignments | File | ||
| settings_index_after_split | Integer |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| split |
tools/count_miRNA_seeds_and_filter_duplicates.cwl
(CommandLineTool)
|
Count miRNA seed in the provided sequences according to chosen definition |
|
| analyze |
tools/analysis.cwl
(Workflow)
|
||
| prepare_mirnas |
tools/prepare_mirnas.cwl
(CommandLineTool)
|
Prepare miRNA fasta file for MIRZA i.e. for each miRNA sequence check if it is 21 nucleotide long and if not eliminate it. It also replaces all u or U into T. In the same time it splits miRNAs into separate files. |
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| mirzag_output | File |
Permalink:
https://w3id.org/cwl/view/git/b4a38d00a8d6e27540217ac5d590ab8a5da0a92e/mirzag_seed.cwl
