RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

by Stamatakis, Alexandros
Published 2014

Rapid forward-in-time simulation at the chromosome and genome level

by Aberer, Andre J, Stamatakis, Alexandros
Published 2013

Performance, Accuracy, and Web Server for Evolutionary Placement of Short Sequence Reads under Maximum Likelihood

by Berger, Simon A., Krompass, Denis, Stamatakis, Alexandros
Published 2011

Coupling SIMD and SIMT architectures to boost performance of a phylogeny-aware alignment kernel

by Alachiotis, Nikolaos, Berger, Simon A, Stamatakis, Alexandros
Published 2012

Pruning Rogue Taxa Improves Phylogenetic Accuracy: An Efficient Algorithm and Webservice

by Aberer, Andre J., Krompass, Denis, Stamatakis, Alexandros
Published 2013

An Efficient Independence Sampler for Updating Branches in Bayesian Markov chain Monte Carlo Sampling of Phylogenetic Trees

by Aberer, Andre J., Stamatakis, Alexandros, Ronquist, Fredrik
Published 2016

ExaBayes: Massively Parallel Bayesian Tree Inference for the Whole-Genome Era

by Aberer, Andre J., Kobert, Kassian, Stamatakis, Alexandros
Published 2014

Algorithms, data structures, and numerics for likelihood-based phylogenetic inference of huge trees

by Izquierdo-Carrasco, Fernando, Smith, Stephen A, Stamatakis, Alexandros
Published 2011

AxPcoords & parallel AxParafit: statistical co-phylogenetic analyses on thousands of taxa

by Stamatakis, Alexandros, Auch, Alexander F, Meier-Kolthoff, Jan, Göker, Markus
Published 2007

A Format for Phylogenetic Placements

by Matsen, Frederick A., Hoffman, Noah G., Gallagher, Aaron, Stamatakis, Alexandros
Published 2012

MLTreeMap - accurate Maximum Likelihood placement of environmental DNA sequences into taxonomic and functional reference phylogenies

by Stark, Manuel, Berger, Simon A, Stamatakis, Alexandros, von Mering, Christian
Published 2010

SweeD: Likelihood-Based Detection of Selective Sweeps in Thousands of Genomes

by Pavlidis, Pavlos, Živković, Daniel, Stamatakis, Alexandros, Alachiotis, Nikolaos
Published 2013

PEAR: a fast and accurate Illumina Paired-End reAd mergeR

by Zhang, Jiajie, Kobert, Kassian, Flouri, Tomáš, Stamatakis, Alexandros
Published 2014

Selecting optimal partitioning schemes for phylogenomic datasets

by Lanfear, Robert, Calcott, Brett, Kainer, David, Mayer, Christoph, Stamatakis, Alexandros
Published 2014

PUmPER: phylogenies updated perpetually

by Izquierdo-Carrasco, Fernando, Cazes, John, Smith, Stephen A., Stamatakis, Alexandros
Published 2014

ChromatoGate: A Tool for Detecting Base Mis-Calls in Multiple Sequence Alignments by Semi-Automatic Chromatogram Inspection

by Alachiotis, Nikolaos, Vogiatzi, Emmanouella, Pavlidis, Pavlos, Stamatakis, Alexandros
Published 2013

A general species delimitation method with applications to phylogenetic placements

by Zhang, Jiajie, Kapli, Paschalia, Pavlidis, Pavlos, Stamatakis, Alexandros
Published 2013

ExaML version 3: a tool for phylogenomic analyses on supercomputers

by Kozlov, Alexey M., Aberer, Andre J., Stamatakis, Alexandros
Published 2015

Does the choice of nucleotide substitution models matter topologically?

by Hoff, Michael, Orf, Stefan, Riehm, Benedikt, Darriba, Diego, Stamatakis, Alexandros
Published 2016

Computing the Internode Certainty and Related Measures from Partial Gene Trees

by Kobert, Kassian, Salichos, Leonidas, Rokas, Antonis, Stamatakis, Alexandros
Published 2016