Introduction

Phylogenies are increasingly used in all fields of medical and biological research. Because of the next generation sequencing revolution, datasets used for conducting phylogenetic analyses grow at an unprecedented pace. We present ExaML version 3, a dedicated production-level code for inferring phylogenies on whole-transcriptome and whole-genome alignments using supercomputers.We introduce several improvements and extensions to ExaML: Extensions of substitution models and supported data types, the integration of a novel load balance algorithm as well as a parallel I/O optimization that significantly improve parallel efficiency, and a production-level implementation for Intel MIC-based hardware platforms.

Publications

  1. ExaML version 3: a tool for phylogenomic analyses on supercomputers.
    Cite this
    Kozlov AM, Aberer AJ, Stamatakis A, 2015-08-01 - Bioinformatics (Oxford, England)

Credits

  1. Alexey M Kozlov
    Developer

    Scientific Computing Group, Heidelberg Institute for Theoretical Studies, Germany

  2. Andre J Aberer
    Developer

    Scientific Computing Group, Heidelberg Institute for Theoretical Studies, Germany

  3. Alexandros Stamatakis
    Investigator

    Scientific Computing Group, Heidelberg Institute for Theoretical Studies, Germany

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Summary
AccessionBT007006
Tool TypeApplication
Category
PlatformsLinux/Unix
Technologies
User InterfaceTerminal Command Line
Download Count0
Country/RegionGermany
Submitted ByAlexandros Stamatakis