Description

Generate a multi-sample report file from the output of ganon report runs

Input

name:type
description
pattern

meta{:bash}

:map

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

tre{:bash}

:file

A list of ‘tre’ files from ganon report

*.tre

Output

name:type
description
pattern

txt{:bash}

meta{:bash}

:map

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

*.txt{:bash}

:file

Output ganon table containing taxonomic profile information of multiple samples. Formatting of contents depends on —output-format.

*.txt

versions_ganon{:bash}

${task.process}{:bash}

:string

The name of the process

ganon{:bash}

:string

The name of the tool

ganon --version 2>1 | sed 's/.*ganon //g'{:bash}

:eval

The expression to obtain the version of the tool

Topics

name:type
description
pattern

versions{:bash}

${task.process}{:bash}

:string

The name of the process

ganon{:bash}

:string

The name of the tool

ganon --version 2>1 | sed 's/.*ganon //g'{:bash}

:eval

The expression to obtain the version of the tool

Tools

ganon
MIT

ganon classifies short DNA sequences against large sets of genomic reference sequences efficiently

github.com/pirovc/ganon 10.1093/bioinformatics/btaa458
included in
taxprofiler
maintainer
Github user jfy133
get in touch
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