Description

Performs fastq alignment to a reference using DRAGMAP

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.

meta2 (map)

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

]

hashmap (file)

DRAGMAP hash table

Directory containing DRAGMAP hash table *.{cmp,.bin,.txt}

Output

Name (Type)
Description
Pattern

bam (file)

Output BAM file containing read alignments

*.{bam}

versions (file)

File containing software versions

versions.yml
included in
nascent rnadnavar sarek
author
Github user Emiller88
get in touch
Ask a question on Slack Open an issue on GitHub

Tools

dragmap
GPL v3

Dragmap is the Dragen mapper/aligner Open Source Software.

github.com/Illumina/dragmap https://github.com/Illumina/dragmap#basic-command-line-usage