Workflow: TransDecoder 2 step workflow, running TransDecoder.LongOrfs (step 1) followed by TransDecoder.Predict (step2)
- Selected
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- Default Values
- Nested Workflows
- Tools
- Inputs/Outputs
Inputs
ID | Type | Title | Doc |
---|---|---|---|
singleBestOnly | Boolean (Optional) | ||
transcriptsFile | File |
Steps
ID | Runs | Label | Doc |
---|---|---|---|
extract_long_orfs |
../tools/TransDecoder/TransDecoder.LongOrfs-v5.cwl
(CommandLineTool)
|
TransDecoder.LongOrfs: Perl script, which extracts the long open reading frames |
TransDecoder identifies candidate coding regions within transcript sequences,
such as those generated by de novo RNA-Seq transcript assembly using Trinity,
or constructed based on RNA-Seq alignments to the genome using Tophat and Cufflinks. |
predict_coding_regions |
../tools/TransDecoder/TransDecoder.Predict-v5.cwl
(CommandLineTool)
|
TransDecoder.Predict: Perl script, which predicts the likely coding regions |
TransDecoder identifies candidate coding regions within transcript sequences,
such as those generated by de novo RNA-Seq transcript assembly using Trinity,
or constructed based on RNA-Seq alignments to the genome using Tophat and Cufflinks. |
Outputs
ID | Type | Label | Doc |
---|---|---|---|
bed_output | File | ||
gff3_output | File | ||
coding_regions | File | ||
peptide_sequences | File |
https://w3id.org/cwl/view/git/9a7118913ae4c9fda6b976170c0eeeed66681dde/workflows/TransDecoder-v5-wf-2steps.cwl