modules/emboss_seqret

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

embossgffemblgenbankfastaconvertswissprot

https://github.com/nf-core/modules/[...]/modules/nf-core/emboss/seqret

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`

`versions.yml:file`

File containing software versions

versions.yml

Tools

emboss
GPL

The European Molecular Biology Open Software Suite

ebi.ac.uk/Tools/sfc/emboss_seqret emboss.bioinformatics.nl/cgi-bin/emboss/help/seqret http://emboss.open-bio.org/ 10.1016/s0168-9525(00)02024-2

modules/emboss_seqret

Description

Input

`meta:map`

`sequence:file`

`out_ext:string`

Output

`outseq`

`meta:map`

`*.${out_ext}:file`

`versions`

`versions.yml:file`

Tools

emboss
GPL

maintainer

get in touch

modules/emboss_seqret

Description

Input

meta:map

sequence:file

out_ext:string

Output

outseq

meta:map

*.${out_ext}:file

versions

versions.yml:file

Tools

emboss GPL

maintainer

get in touch

`meta:map`

`sequence:file`

`out_ext:string`

`outseq`

`meta:map`

`*.${out_ext}:file`

`versions`

`versions.yml:file`

emboss
GPL