SAMBAMBA-high performance parallel tool for working with SAM and BAM files

 https://github.com/biod/sambamba

 

SAMBAMBA-high performance highly parallel robust and fast tool for working with SAM and BAM files 

 

function: view, index, sort, markdup, and depth.

flagstat : 1.4x faster than samtools. 

Index : similar. 

Markdup : ~ 6x faster 

View :      ~4x faster

Sort  : Sambamba has been beaten, though sambamba is notably up to 2x faster than samtools on large RAM machines (120GB+).