Article
GMAP and GSNAP for Genomic Sequence Alignment: Enhancements to Speed, Accuracy, and Functionality.
Methods in molecular biology (Clifton, N.J.) - 1 Jan 2016
Wu Thomas D, Reeder Jens, Lawrence Michael, Becker Gabe, Brauer Matthew J
Abstract excerpt
The programs GMAP and GSNAP, for aligning RNA-Seq and DNA-Seq datasets to genomes, have evolved along with advances in biological methodology to handle longer reads, larger volumes of data, and new types of biological assays. The genomic representation has been improved to include linear genomes that can compare sequences using single-instruction multiple-data (SIMD) instructions, compressed genomic hash tables...
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