Nextflow Registry | nf-core/tesorter@0.0.0-6c4ed3a

nf-core/tesorter @ 0.0.0-6c4ed3a

An accurate and fast method to classify LTR-retrotransposons in plant genomes

genomics classify LTR retrotransposons plant

Latest version: 0.0.0-6c4ed3a

Total downloads: 10

Source: nf-core/modules

Authors: @GallVp

Maintainers: @GallVp

An accurate and fast method to classify LTR-retrotransposons in plant genomes

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

include { TESORTER } from 'nf-core/tesorter'

MIT License

Process

`Name`	`TESORTER`

Input 2 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`fasta` file	Input sequence `*.{fa,fasta,fsa,faa}`

#2 tuple

`meta2` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`db_hmm` file	The database HMM file used

Output 8 channels

#1 domtbl tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*.domtbl` file	HMMScan raw output `*.{domtbl}`

#2 cls_lib tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*.cls.lib` file	Fasta library for RepeatMasker `*.cls.{lib}`

#3 cls_pep tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*.cls.pep` file	The same sequences as '.dom.faa', but id is changed with classifications `.cls.{pep}`

#4 cls_tsv tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*.cls.tsv` file	TEs/LTR-RTs classifications `*.cls.{tsv}`

#5 dom_faa tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*.dom.faa` file	Protein sequences of domain, which can be used for phylogenetic analysis `*.dom.{faa}`

#6 dom_tsv tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*.dom.tsv` file	Inner domains of TEs/LTR-RTs, which might be used to filter domains based on their scores and coverages `*.dom.{tsv}`

#7 dom_gff3 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*.dom.gff3` file	Domain annotations in 'gff3' format `*.dom.{gff3}`

#8 versions

`versions.yml` file	File containing software versions `versions.yml`

Tool	Description	Homepage
tesorter	Lineage-level classification of transposable elements using conserved protein domains.	https://github.com/zhangrengang/TEsorter

Version	0.0.0-6c4ed3a
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	23 Apr 2026 15:49:44 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Ftesorter/0.0.0-6c4ed3a/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/tesorter/blobs/sha256:0ef1602811d18418883fd96179aa597d185df37e6fedfa1b287cb99173b6b15a
Size	3.2 KB