PROJECT TITLE :

Concurrent and Accurate Short Read Mapping on Multicore Processors

ABSTRACT:

We have a tendency to introduce a parallel aligner with a work-flow organization for fast and accurate mapping of RNA sequences on servers equipped with multicore processors. Our software, HPG Aligner SA (HPG Aligner SA is an open-supply application. The software is out there at http://www.opencb.org/), exploits a suffix array to rapidly map a massive fraction of the RNA fragments (reads), also leverages the accuracy of the Smith-Waterman algorithm to deal with conflictive reads. The aligner is enhanced with a careful strategy to detect splice junctions primarily based on an adaptive division of RNA reads into little segments (or seeds), that are then mapped onto a number of candidate alignment locations, providing crucial information for the successful alignment of the complete reads. The experimental results on a platform with Intel multicore technology report the parallel performance of HPG Aligner SA , on RNA reads of 100-four hundred nucleotides, that excels in execution time/sensitivity to state-of-the-art aligners such as TopHat 2+Bowtie a pair of, MapSplice, and STAR.