Description

gget is a free, open-source command-line tool and Python package that enables efficient querying of genomic databases. gget consists of a collection of separate but interoperable modules, each designed to facilitate one type of database querying in a single line of code.

Input

name:type
description
pattern

meta:map

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

files:file

Optional input files which can be specified for certain tools. This is mostly used to supply a FASTA file for gget muscle.

Output

name:type
description
pattern

files

meta:map

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

*[!versions.yml][!${prefix}.${extension}]*:file

File containing output of gget command.

output

meta:map

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

${prefix}.${extension}:file

File containing output of gget command (-o for most gget tools).

*.{json,csv}

versions

versions.yml:file

File containing software versions

versions.yml

Tools

maintainer
Github user adamrtalbot
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