Description

Screens query sequences against large sequence databases

Input

name:type
description
pattern

meta:map

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

query:file

Query sequences

*.fastq.gz

meta2:map

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

sequences_sketch:file

sketch file of sequences

Output

name:type
description
pattern

screen

meta:map

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

*.screen:file

List of sequences from fastx_db similar to query sequences

*.screen

versions

versions.yml: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