Description

Align reads to a reference genome using bowtie

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)

Bowtie genome index files

*.ebwt

Output

Name (Type)
Description
Pattern

bam (file)

Output BAM file containing read alignments

*.{bam}

versions (file)

File containing software versions

versions.yml

fastq (file)

Unaligned FastQ files

*.fastq.gz

Tools

bowtie
Artistic-2.0

bowtie is a software package for mapping DNA sequences against a large reference genome, such as the human genome.