RT Journal Article
SR Electronic
T1 Teaser: Individualized benchmarking and optimization of read mapping results for NGS data
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 025858
DO 10.1101/025858
A1 Moritz Smolka
A1 Philipp Rescheneder
A1 Michael C. Schatz
A1 Arndt von Haeseler
A1 Fritz J. Sedlazeck
YR 2015
UL http://biorxiv.org/content/early/2015/09/01/025858.abstract
AB Mapping reads to a genome remains challenging, especially for non-model organisms with poorer quality assemblies, or for organisms with higher rates of mutations. While most research has focused on speeding up the mapping process, little attention has been paid to optimize the choice of mapper and parameters for a user’s dataset. Here we present Teaser, which assists in these choices through rapid automated benchmarking of different mappers and parameter settings for individualized data. Within minutes, Teaser completes a quantitative evaluation of an ensemble of mapping algorithms and parameters. Using Teaser, we demonstrate how Bowtie2 can be optimized for different data.