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SOAP3-dp: Fast, Accurate and Sensitive GPU-Based Short Read Aligner

Luo, Ruibang; Wong, King Fung (Thomas); Zhu, Jianqiao; Liu, Chi-Man; Zhu, Xiaoqian; Wu, Edward; Lee, Lap-Kei; Lin, Haoxiang; Zhu, Wenjuan; Cheung, David W; Ting, Hing-Fung; Yiu, Siu-Ming


To tackle the exponentially increasing throughput of Next-Generation Sequencing (NGS), most of the existing short-read aligners can be configured to favor speed in trade of accuracy and sensitivity. SOAP3-dp, through leveraging the computational power of both CPU and GPU with optimized algorithms, delivers high speed and sensitivity simultaneously. Compared with widely adopted aligners including BWA, Bowtie2, SeqAlto, CUSHAW2, GEM and GPU-based aligners BarraCUDA and CUSHAW, SOAP3-dp was found...[Show more]

CollectionsANU Research Publications
Date published: 2013
Type: Journal article
Source: PLOS ONE (Public Library of Science)
DOI: 10.1371/journal.pone.0065632
Access Rights: Open Access


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