Description

Creates vastly reduced representations of sequences using MinHash

Input

name:type
description
pattern

meta{:bash}

:map

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

reads{:bash}

:file

List of input paired-end FastQ files

Output

name:type
description
pattern

mash{:bash}

meta{:bash}

:map

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

*.msh{:bash}

:file

Sketch output

*.{mash}

stats{:bash}

meta{:bash}

:map

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

*.mash_stats{:bash}

:file

Sketch statistics

*.{mash_stats}

versions{:bash}

versions.yml{:bash}

:file

File containing software versions

versions.yml

Tools

mash
https://github.com/marbl/Mash/blob/master/LICENSE.txt

Fast sequence distance estimator that uses MinHash