Workflow: Find reads with predicted coding sequences above 60 AA in length
- Selected
- |
- Default Values
- Nested Workflows
- Tools
- 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 |
---|---|---|---|
model | https://w3id.org/cwl/view/git/d4e5e533ee6dc93bfaf1c4bbb2ab40812a8f4792/tools/FragGeneScan-model.yaml#model | ||
sequence | File [FASTA] | ||
completeSeq | Boolean |
Steps
ID | Runs | Label | Doc |
---|---|---|---|
ORF_prediction |
../tools/FragGeneScan1_20.cwl
(CommandLineTool)
|
FragGeneScan: find (fragmented) genes in short reads |
FragGeneScan is an application for finding (fragmented) genes in short
reads. It can also be applied to predict prokaryotic genes in incomplete
assemblies or complete genomes. |
remove_short_pCDS |
../tools/discard_short_seqs.cwl
(CommandLineTool)
|
drop short seqs |
Outputs
ID | Type | Label | Doc |
---|---|---|---|
predictedCDS | File [FASTA] |
Permalink:
https://w3id.org/cwl/view/git/d4e5e533ee6dc93bfaf1c4bbb2ab40812a8f4792/workflows/orf_prediction.cwl