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

]

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

meta (map)

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

]

versions (file)

File containing software versions

versions.yml

outseq (file)

Converted sequence file

*
author
Github user MillironX
get in touch
Ask a question on Slack Open an issue on GitHub

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