Description

Performs de novo transposable element (TE) family identification with RepeatModeler

Input

name:type
description
pattern

meta{:bash}

:map

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

db{:bash}

:file

RepeatModeler database files generated with REPEATMODELER_BUILDDATABASE

*

Output

name:type
description
pattern

fasta{:bash}

meta{:bash}

:map

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

*.fa{:bash}

:file

Consensus repeat sequences

*.fa

stk{:bash}

meta{:bash}

:map

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

*.stk{:bash}

:file

Seed alignments

*.stk

log{:bash}

meta{:bash}

:map

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

*.log{:bash}

:file

A summarized log of the run

*.log

versions{:bash}

versions.yml{:bash}

:file

File containing software versions

versions.yml

Tools

repeatmodeler
Open Software License v2.1

RepeatModeler is a de-novo repeat family identification and modeling package.

github.com/Dfam-consortium/RepeatModeler
maintainer
Github user GallVp
get in touch
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