run-gen-ref

Burrows-Wheeler Aligner

Install

All systems
curl cmd.cat/run-gen-ref.sh
Debian Debian
apt-get install bwa
Ubuntu
apt-get install bwa
image/svg+xml Kali Linux
apt-get install bwa
Fedora
dnf install bwa
Windows (WSL2)
sudo apt-get update sudo apt-get install bwa
OS X
brew install bwa
Raspbian
apt-get install bwa
Dockerfile
dockerfile.run/run-gen-ref

bwa

Burrows-Wheeler Aligner

BWA is a software package for mapping low-divergent sequences against a large reference genome, such as the human genome. It consists of three algorithms: BWA-backtrack, BWA-SW and BWA-MEM. The first algorithm is designed for Illumina sequence reads up to 100bp, while the rest two for longer sequences ranged from 70bp to 1Mbp. BWA-MEM and BWA-SW share similar features such as long-read support and split alignment, but BWA-MEM, which is the latest, is generally recommended for high-quality queries as it is faster and more accurate. BWA-MEM also has better performance than BWA-backtrack for 70-100bp Illumina reads.