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SAGE2: parallel human genome assembly
Michael Molnar1, Ehsan Haghshenas2, Lucian Ilie1
1Department of Computer Science, University of Western Ontario, London, ON N6A 5B7, Canada.
Summary:
De novo genome assembly of next-generation sequencing data is a fundamental problem in bioinformatics. There are many programs that assemble small genomes, but very few can assemble whole human genomes. We present a new algorithm for parallel overlap graph construction, which is capable of assembling human genomes and improves upon the current state-of-the-art in genome assembly.
Availability And Implementation:
SAGE2 is written in C ++ and OpenMP and is freely available (under the GPL 3.0 license) at github.com/lucian-ilie/SAGE2.
Contact:
ilie@uwo.ca.
Supplementary Information:
Supplementary data are available at Bioinformatics online.
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