nf-core/transdecoder/predict @ 0.0.0-0c7146d
Summary
TransDecoder identifies candidate coding regions within transcript sequences. It is used to build gff file. You can use this module after transdecoder_longorf
Get started
Add the following snippet to your workflow script to include this module.
include { TRANSDECODER_PREDICT } from 'nf-core/transdecoder/predict'
License
MIT License
Name
|
TRANSDECODER_PREDICT |
|---|
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
fasta
file
|
fasta file *.{fasta}
|
fold
directory
|
Output from the module transdecoder_longorf *
|
|---|
bed
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.transdecoder.bed
file
|
bed file *{bed}
|
cds
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.transdecoder.cds
file
|
the nucleotide coding sequence for all detected ORFs *{cds}
|
pep
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.transdecoder.pep
file
|
All ORFs meeting the minimum length criteria, regardless of coding potential *.{pep}
|
gff3
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.transdecoder.gff3
file
|
Positions of all ORFs as found in the target transcripts *.{gff3}
|
versions
versions.yml
file
|
File containing software versions versions.yml
|
|---|
| Tool | Description | Homepage |
|---|---|---|
| transdecoder | 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. | https://github.com/TransDecoder |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 08 Apr 2026 19:44:03 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Ftransdecoder%2Fpredict/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/transdecoder/predict/blobs/sha256:5ab378099c4b993009a6fae3ead93cca48e441a4042b50e37557c713a842a9b5 |
| Size | 2.9 KB |
| Checksum | sha256:5ab378099c4b993009a6fae3ead93cca48e441a4042b50e37557c713a842a9b5 |
| Downloads | 4 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:50:04 (UTC) | 3 | 2.9 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:34:40 (UTC) | 3 | 2.9 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:44:03 (UTC) | 4 | 2.9 KB |