Exploiting parallelization in positional Burrows-Wheeler transform (PBWT) algorithms for efficient haplotype matching and compression

被引：0
|
作者：
Wertenbroek, Rick [1 ,2 ]
Xenarios, Ioannis [2 ]
Thoma, Yann [1 ]
Delaneau, Olivier [2 ]
机构：
[1] HES SO Univ Appl Sci & Arts Western Switzerland, Sch Engn & Management Vaud HEIG VD, CH-1401 Yverdon, Switzerland
[2] Univ Lausanne, Dept Computat Biol, CH-1015 Lausanne, Switzerland
来源：
BIOINFORMATICS ADVANCES | 2023年 / 3卷 / 01期
基金：
瑞士国家科学基金会;
关键词：
D O I：
10.1093/bioadv/vbad021
中图分类号：
Q [生物科学];
学科分类号：
07 ; 0710 ; 09 ;
摘要：
The positional Burrows-Wheeler transform (PBWT) data structure allows for efficient haplotype data matching and compression. Its performance makes it a powerful tool for bioinformatics. However, existing algorithms do not exploit parallelism due to inner dependencies. We introduce a new method to break the dependencies and show how to fully exploit modern multi-core processors.
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页数：4
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