Nextflow Registry | nf-core/transdecoder/longorf@0.0.0-0c7146d

nf-core/transdecoder/longorf @ 0.0.0-0c7146d

TransDecoder identifies candidate coding regions within transcript sequences. it is used to build gff file.

eucaryotes gff transcript coding

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @Danilo2771

Maintainers: @Danilo2771

TransDecoder identifies candidate coding regions within transcript sequences. it is used to build gff file.

Add the following snippet to your workflow script to include this module.

include { TRANSDECODER_LONGORF } from 'nf-core/transdecoder/longorf'

MIT License

Process

`Name`	`TRANSDECODER_LONGORF`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`fasta` file	fasta file `*.{fasta}`

Output 6 channels

#1 cds tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`${output_dir_name}/*.cds` file	the nucleotide coding sequence for all detected ORFs. file `*{cds}`

#2 dat tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`${output_dir_name}/*.dat` file	nucleotide frequencies `*{dat}`

#3 pep tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`${output_dir_name}/*.pep` file	all ORFs meeting the minimum length criteria, regardless of coding potential. file `*.{pep}`

#4 gff3 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`${output_dir_name}/*.gff3` file	positions of all ORFs as found in the target transcripts. file `*.{gff3}`

#5 folder

`${output_dir_name}` directory	contains all the files from the run

#6 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	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 19:19:49 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Ftransdecoder%2Flongorf/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/transdecoder/longorf/blobs/sha256:e8171b4498b59b3cf8318e832d7267e6b83d52860bdc61471e5d74e450d25383
Size	2.9 KB
Checksum	sha256:e8171b4498b59b3cf8318e832d7267e6b83d52860bdc61471e5d74e450d25383
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 19:19:49 (UTC)		1	2.9 KB	-