462 citations · 462 across the 1 of their papers we have counts for
6 papers
MEGAHIT: An ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph
Dinghua Li, Chi-Man Liu, Ruibang Luo +2
MEGAHIT is a NGS de novo assembler for assembling large and complex metagenomics data in a time- and cost-efficient manner. It finished assembling a soil metagenomics dataset with…
MICA: A fast short-read aligner that takes full advantage of Intel Many Integrated Core Architecture (MIC)
Sze-Hang Chan, Jeanno Cheung, Edward Wu +6
Background: Short-read aligners have recently gained a lot of speed by exploiting the massive parallelism of GPU. An uprising alternative to GPU is Intel MIC; supercomputers like T…
GPU-Accelerated BWT Construction for Large Collection of Short Reads
Chi-Man Liu, Ruibang Luo, Tak-Wah Lam
Advances in DNA sequencing technology have stimulated the development of algorithms and tools for processing very large collections of short strings (reads). Short-read alignment a…
SOAPdenovo-Trans: De novo transcriptome assembly with short RNA-Seq reads
Yinlong Xie, Gengxiong Wu, Jingbo Tang +13
Motivation: Transcriptome sequencing has long been the favored method for quickly and inexpensively obtaining the sequences for a large number of genes from an organism with no ref…
SOAP3-dp: Fast, Accurate and Sensitive GPU-based Short Read Aligner
Ruibang Luo, Thomas Wong, Jianqiao Zhu +12
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 accurac…
Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species
Keith R. Bradnam, Joseph N. Fass, Anton Alexandrov +88
Background - The process of generating raw genome sequence data continues to become cheaper, faster, and more accurate. However, assembly of such data into high-quality, finished g…