READSCAN: A fast and scalable pathogen discovery program with accurate genome relative abundance estimation

Abstract

Summary: READSCAN is a highly scalable parallel program to identify non-host sequences (of potential pathogen origin) and estimate their genome relative abundance in high-throughput sequence datasets. READSCAN accurately classified human and viral sequences on a 20.1 million reads simulated dataset in <27 min using a small Beowulf compute cluster with 16 nodes (Supplementary Material).Availability: http://cbrc.kaust.edu.sa/readscanContact: or raeece.naeem@gmail.comSupplementary information: Supplementary data are available at Bioinformatics online. © 2012 The Author(s).