Description

Reads in one or more sequences, converts, filters, or transforms them and writes them out again

Input

name:type
description
pattern

meta

:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]

sequence

:file

Input sequence query

*.{gff,em,gb,refseq,pir,swiss,sw,txt}

out_ext

:string

File extension of the output file. Unless otherwise set by a flag in ext.args, the extension dictates the output file format.

Output

name:type
description
pattern

outseq

meta

:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]

*.${out_ext}

:file

Converted sequence file

*

versions_emboss

${task.process}

:string

The name of the process

emboss

:string

The name of the tool

revseq -version 2>&1 | sed 's/EMBOSS://'

:eval

The expression to obtain the version of the tool

Topics

name:type
description
pattern

versions

${task.process}

:string

The name of the process

emboss

:string

The name of the tool

revseq -version 2>&1 | sed 's/EMBOSS://'

:eval

The expression to obtain the version of the tool

Tools

included in
taxmarker
maintainer
Github user MillironX
get in touch
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