Description

Predicts LTR retrotransposons using the parallel version of GenomeTools gt-ltrharvest utility included in the EDTA toolchain

Input

name:type
description
pattern

meta{:bash}

:map

Groovy Map containing sample information e.g. [ id:'sample1' ]

fasta{:bash}

:file

Input genome fasta

*.{fsa,fa,fasta}

Output

name:type
description
pattern

gff3{:bash}

meta{:bash}

:map

Groovy Map containing sample information e.g. [ id:'sample1' ]

*.gff3{:bash}

:file

Predicted LTR candidates in gff3 format

*.gff3

scn{:bash}

meta{:bash}

:map

Groovy Map containing sample information e.g. [ id:'sample1' ]

*.scn{:bash}

:file

Predicted LTR candidates in scn format

*.scn

versions{:bash}

versions.yml{:bash}

:file

File containing software versions

versions.yml

Tools

LTR_HARVEST_parallel
MIT

A Perl wrapper for LTR_harvest

github.com/oushujun/EDTA/tree/v2.2.0/bin/LTR_HARVEST_parallel
maintainer
Github user GallVp
get in touch
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