Description

Align reads to a reference genome using YARA

Input

Name (Type)
Description
Pattern

meta (map)

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

]

reads (file)

List of input FastQ files of size 1 and 2 for single-end and paired-end data,
respectively.

index (file)

YARA genome index files

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

bam (file)

Sorted BAM file

*.{bam}

bai (file)

Sorted BAM file index

*.{bai}
included in
hlatyping
author
Github user apeltzer
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Tools

yara
https://raw.githubusercontent.com/seqan/seqan/develop/apps/yara/LICENSE

Yara is an exact tool for aligning DNA sequencing reads to reference genomes.

github.com/seqan/seqan