Article
Evaluation of alignment algorithms for discovery and identification of pathogens using RNA-Seq.
PloS one - 1 Jan 2013
Borozan Ivan, Watt Stuart N, Ferretti Vincent
Abstract excerpt
Next-generation sequencing technologies provide an unparallelled opportunity for the characterization and discovery of known and novel viruses. Because viruses are known to have the highest mutation rates when compared to eukaryotic and bacterial organisms, we assess the extent to which eleven well-known alignment algorithms (BLAST, BLAT, BWA, BWA-SW, BWA-MEM, BFAST, Bowtie2, Novoalign, GSNAP, SHRiMP2 and STAR)...
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