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 (files)

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

meta (map)

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

]

versions (file)

File containing software versions

versions.yml

output (file)

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

*.{json,csv}

file (file)

Path to any file downloaded by gget

*
maintainer
Github user adamrtalbot
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Tools