Introduction

Mapping reads to a genome remains challenging, especially for non-model organisms with lower quality assemblies, or for organisms with higher mutation rates. 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, a software that 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. We use Teaser to demonstrate how Bowtie2 can be optimized for different data.

Publications

  1. Teaser: Individualized benchmarking and optimization of read mapping results for NGS data.
    Cite this
    Smolka M, Rescheneder P, Schatz MC, von Haeseler A, Sedlazeck FJ, 2015-10-01 - Genome biology

Credits

  1. Moritz Smolka
    Developer

    Center for Integrative Bioinformatics Vienna, Max F. Perutz Laboratories, Austria

  2. Philipp Rescheneder
    Developer

    Center for Integrative Bioinformatics Vienna, Max F. Perutz Laboratories, Austria

  3. Michael C Schatz
    Developer

    iPlant Collaborative/University of Arizona, Tuscon

  4. Arndt von Haeseler
    Developer

    Bioinformatics and Computational Biology, Faculty of Computer Science

  5. Fritz J Sedlazeck
    Investigator

    iPlant Collaborative/University of Arizona, Tuscon

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Summary
AccessionBT000266
Tool TypeApplication
Category
PlatformsLinux/Unix
Technologies
User InterfaceTerminal Command Line
Download Count0
Submitted ByFritz J Sedlazeck