Alexandros Stamatakis

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Oleksiy M. KozlovHeidelberg Institute for Theoretical StudiesVerified email at h-its.org
Simon A BergerHeidelberg Institute for Theoretical Studies (HITS gGmbH)Verified email at h-its.org
Kassian KobertUni BielefeldVerified email at uni-bielefeld.de
Diego DarribaUniversity of A Coruña, CITIC, Computer Architecture GroupVerified email at udc.es
Thomas LudwigProfessor Computer ScienceVerified email at org.dkrz.de
Lucas CzechGlobe Institute, University of CopenhagenVerified email at sund.ku.dk
Andre J. AbererVerified email at aberer.io
Pavlos PavlidisFoundation of Research and Technology - Hellas (ICS)Verified email at ics.forth.gr
Nikolaos AlachiotisUniversity of TwenteVerified email at utwente.nl
Jiajie ZhangGSKVerified email at gsk.com
Fernando Izquierdo-CarrascoAmazon Web ServicesVerified email at amazon.com
Pierre BarberaVerified email at h-its.org
Paschalia KapliResearch Leader, Natural History Museum, LondonVerified email at nhm.ac.uk
Olaf R.P. Bininda-EmondsProfessor of Molecular Systematics, University of OldenburgVerified email at uni-oldenburg.de
Nicholas D. PattengaleVerified email at cs.unm.edu
Micah DunthornNatural History Museum, University of OsloVerified email at nhm.uio.no
Frédéric MahéCIRAD, UMR PHIM, F-34398, Montpellier, FranceVerified email at cirad.fr
Stephen A. SmithProfessor, University of MichiganVerified email at umich.edu
Bernard M.E. MoretISCB Fellow, Professor emeritus, Computer & Communication Sciences, EPFLVerified email at epfl.ch
Denis KrompassSiemens AGVerified email at siemens.com

Alexandros Stamatakis

Foundation for Research and Technology - Hellas, HITS gGmbH, KIT

Verified email at ics.forth.gr - Homepage

Algorithms Parallel Computing Bioinformatics Phylogenetics Evolutionary Biology


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RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies A Stamatakis Bioinformatics 30 (9), 1312-1313, 2014	32241	2014
RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models A Stamatakis Bioinformatics 22 (21), 2688-2690, 2006	17784	2006
A rapid bootstrap algorithm for the RAxML web servers A Stamatakis, P Hoover, J Rougemont Systematic biology 57 (5), 758-771, 2008	8163	2008
ARB: a software environment for sequence data W Ludwig, O Strunk, R Westram, L Richter, H Meier, Yadhukumar, ... Nucleic acids research 32 (4), 1363-1371, 2004	6805	2004
PEAR: a fast and accurate Illumina Paired-End reAd mergeR J Zhang, K Kobert, T Flouri, A Stamatakis Bioinformatics 30 (5), 614-620, 2014	4418	2014
RAxML-NG: a fast, scalable and user-friendly tool for maximum likelihood phylogenetic inference AM Kozlov, D Darriba, T Flouri, B Morel, A Stamatakis Bioinformatics 35 (21), 4453-4455, 2019	3218	2019
A general species delimitation method with applications to phylogenetic placements J Zhang, P Kapli, P Pavlidis, A Stamatakis Bioinformatics 29 (22), 2869-2876, 2013	2824	2013
Phylogenomics resolves the timing and pattern of insect evolution B Misof, S Liu, K Meusemann, RS Peters, A Donath, C Mayer, ... Science 346 (6210), 763-767, 2014	2715	2014
Whole-genome analyses resolve early branches in the tree of life of modern birds ED Jarvis, S Mirarab, AJ Aberer, B Li, P Houde, C Li, SYW Ho, ... Science 346 (6215), 1320-1331, 2014	2017	2014
RAxML-III: a fast program for maximum likelihood-based inference of large phylogenetic trees A Stamatakis, T Ludwig, H Meier Bioinformatics 21 (4), 456-463, 2005	1728	2005
ModelTest-NG: a new and scalable tool for the selection of DNA and protein evolutionary models D Darriba, D Posada, AM Kozlov, A Stamatakis, B Morel, T Flouri Molecular biology and evolution 37 (1), 291-294, 2020	1578	2020
Eleven grand challenges in single-cell data science D Lähnemann, J Köster, E Szczurek, DJ McCarthy, SC Hicks, ... Genome biology 21, 1-35, 2020	1162	2020
How many bootstrap replicates are necessary? ND Pattengale, M Alipour, ORP Bininda-Emonds, BME Moret, ... Journal of Computational Biology 17 (3), 337-354, 2010	902	2010
Multi-rate Poisson tree processes for single-locus species delimitation under maximum likelihood and Markov chain Monte Carlo P Kapli, S Lutteropp, J Zhang, K Kobert, P Pavlidis, A Stamatakis, T Flouri Bioinformatics 33 (11), 1630-1638, 2017	874	2017
Assessing the root of bilaterian animals with scalable phylogenomic methods A Hejnol, M Obst, A Stamatakis, M Ott, GW Rouse, GD Edgecombe, ... Proceedings of the Royal Society B: Biological Sciences 276 (1677), 4261-4270, 2009	856	2009
Selecting optimal partitioning schemes for phylogenomic datasets R Lanfear, B Calcott, D Kainer, C Mayer, A Stamatakis BMC Evolutionary Biology 14 (1), 82, 2014	744	2014
EPA-ng: massively parallel evolutionary placement of genetic sequences P Barbera, AM Kozlov, L Czech, B Morel, D Darriba, T Flouri, ... Systematic biology 68 (2), 365-369, 2019	560	2019
Frontiers: The iPlant Collaborative: Cyberinfrastructure for Plant Biology SA Goff, M Vaughn, S McKay, E Lyons, AE Stapleton, D Gessler, ... Frontiers in Plant Genetics And Genomics 2, 2011	548*	2011
Metagenomic species profiling using universal phylogenetic marker genes S Sunagawa, DR Mende, G Zeller, F Izquierdo-Carrasco, SA Berger, ... Nature methods 10 (12), 1196-1199, 2013	537	2013
Performance, accuracy, and web server for evolutionary placement of short sequence reads under maximum likelihood SA Berger, D Krompass, A Stamatakis Systematic biology 60 (3), 291, 2011	537	2011

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