Integrated genome sizing (IGS) approach for the parallelization of whole genome analysis.

ABSTRACT:

Background

The use of whole genome sequence has increased recently with rapid progression of next-generation sequencing (NGS) technologies. However, storing raw sequence reads to perform large-scale genome analysis pose hardware challenges. Despite advancement in genome analytic platforms, efficient approaches remain relevant especially as applied to the human genome. In this study, an Integrated Genome Sizing (IGS) approach is adopted to speed up multiple whole genome analysis in high-performance computing (HPC) environment. The approach splits a genome (GRCh37) into 630 chunks (fragments) wherein multiple chunks can simultaneously be parallelized for sequence analyses across cohorts.

Results

IGS was integrated on Maha-Fs (HPC) system, to provide the parallelization require

SUBMITTER: Sona P 

PROVIDER: S-EPMC6276166 | biostudies-literature | 2018 Dec

REPOSITORIES: biostudies-literature