mSNP: A Massively Parallel Algorithm for Large-Scale SNP Detection

Single Nucleotide Polymorphism (SNP) detection is a fundamental procedure of whole genome analysis. SOAPsnp, a classic tool for detection, would take more than one week to analyze one typical human genome, which limits the efficiency of downstream analyses. In this paper, we present mSNP, an optimiz...

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Bibliographic Details
Published in:IEEE transactions on parallel and distributed systems Vol. 29; no. 11; pp. 2557 - 2567
Main Authors: Cui, Yingbo, Peng, Shaoliang, Lu, Yutong, Zhu, Xiaoqian, Wang, Bingqiang, Wu, Chengkun, Liao, Xiangke
Format: Journal Article
Language:English
Published: New York IEEE 01.11.2018
The Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Subjects:
Bioinformatics
Computer memory
Computing time
Coprocessors
Data structures
Genomes
Genomics
Graphics processing units
MIC
Microsoft Windows
Polymorphism
SNP detection
SOAPsnp
sparse matrix
vectorization
Xeon Phi
ISSN:1045-9219, 1558-2183
Online Access:Get full text
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