bwa.1NAME bwa - Burrows-Wheeler Alignment Tool CONTENTS Synopsis Description Commands And Options Sam Alignment Format Notes On Short-read Alignment Alignment Accuracy Estimating Insert Size Distribution Memory Requirement Speed Changes In Bwa-0.6 See Also Author License And Citation History SYNOPSIS bwa index ref.fa bwa mem ref.fa reads.fq > aln-se.sam bwa mem ref.fa read1.fq read2.fq > aln-pe.sam bwa
