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Optimizing Burrows-Wheeler Transform-Based Sequence Alignment on Multicore Architectures
2013
2013 13th IEEE/ACM International Symposium on Cluster, Cloud, and Grid Computing
Computational biology sequence alignment tools using the Burrows-Wheeler Transform (BWT) are widely used in next-generation sequencing (NGS) analysis. However, despite extensive optimization efforts, the performance of these tools still cannot keep up with the explosive growth of sequencing data. Through an in-depth performance analysis of BWA, a popular BWT-based aligner on multicore architectures, we demonstrate that such tools are limited by memory bandwidth due to their irregular memory
doi:10.1109/ccgrid.2013.67
dblp:conf/ccgrid/ZhangLBF13
fatcat:6olzfr37wfcjvp62vboodprqfa