Exelixis is the Greek word for evolution.
The background image is a view of Mount Psiloritis on the island of Crete in winter 2006.
Our focus is on the evolution of hardware and parallel computer architectures as well as on the evolution of molecular sequences.
We understand Bioinformatics as a discipline that develops algorithms, models, and tools that help Biologists to generate new biological insights and knowledge.
We try to bridge the gap between the world of systematics and the world of high performance computing.
Due to the increasing descrepancy between the pace of molecular data accumulation and increase in CPU speeds (which is much slower),
which we call the "Bio-Gap" we feel that the time has come to establish parallel computing as standard technique in Bioinformatics.
ExaBayes: Large Scale and Massively Parallel Bayesian Phylogenetic Inference
ExaBayes: A fast and scalable Bayesian inference tool for normal computers and supercomputers.
It is as fast or faster (on DNA data) than MrBayes and we demonstrated parallel scalability of up to 32,000 cores
for it on the Munich supercomputing system: SuperMUC.
There is finally a new manual available for RAxML version 8.0.X. You can get it here
There is an open PhD position in our lab, click here for further information.
Prospective students from KIT
We are always looking for student programmers (HiWis) and students interested in doing bachelor/master theses projects with us.
If you are interested please send an email to Alexis at
Alexandros dot Stamatakis at h hyphen its dot org
Our 5 Most Recent Papers
A.M. Kozlov, C. Goll, A. Stamatakis: "Efficient Computation of the Phylogenetic Likelihood Function on the Intel MIC Architecture".
In Proceedings of HICOMB workshop, held in conjunction with IPDPS 2014, Phoenix, Arizona, May 2014, accepted for publication. PDF
L. Salichos, A. Stamatakis, A. Rokas: "Novel Information Theory-Based Measures for Quantifying Incongruence among Phylogenetic Trees". In Molecular Biology and Evolution, 2014,
F. Izquierdo-Carrasco, J. Cazes, S.A. Smith, A. Stamatakis: "PUmPER: Phylogenies Updated Perpetually". In Bioinformatics, 2014,
M. Dunthorn, J. Otto, S.A. Berger, A. Stamatakis, F. Mahé, S. Romac, C. de Vargas, S. Audic, A. Stock, F. Kauff, T. Stoeck, BioMarKs Consortium:
"Placing environmental next generation sequencing amplicons from microbial eukaryotes into a phylogenetic context". In Molecular Biology and Evolution, 2014,
A. Stamatakis: "RAxML Version 8: A tool for Phylogenetic Analysis and Post-Analysis of Large Phylogenies". In Bioinformatics, 2014,