ParGenes: a tool for massively parallel model selection and phylogenetic tree inference on thousands of genes

por Morel, Benoit, Kozlov, Alexey M, Stamatakis, Alexandros
Publicado 2019

A fast and memory-efficient implementation of the transfer bootstrap

por Lutteropp, Sarah, Kozlov, Alexey M, Stamatakis, Alexandros
Publicado 2020

ExaML version 3: a tool for phylogenomic analyses on supercomputers

por Kozlov, Alexey M., Aberer, Andre J., Stamatakis, Alexandros
Publicado 2015

The Free Lunch is not over yet—systematic exploration of numerical thresholds in maximum likelihood phylogenetic inference

por Haag, Julia, Hübner, Lukas, Kozlov, Alexey M, Stamatakis, Alexandros
Publicado 2023

GeneRax: A Tool for Species-Tree-Aware Maximum Likelihood-Based Gene  Family Tree Inference under Gene Duplication, Transfer, and Loss

por Morel, Benoit, Kozlov, Alexey M, Stamatakis, Alexandros, Szöllősi, Gergely J
Publicado 2020

RAxML-NG: a fast, scalable and user-friendly tool for maximum likelihood phylogenetic inference

por Kozlov, Alexey M, Darriba, Diego, Flouri, Tomáš, Morel, Benoit, Stamatakis, Alexandros
Publicado 2019

NetRAX: accurate and fast maximum likelihood phylogenetic network inference

por Lutteropp, Sarah, Scornavacca, Céline, Kozlov, Alexey M, Morel, Benoit, Stamatakis, Alexandros
Publicado 2022

Exploring parallel MPI fault tolerance mechanisms for phylogenetic inference with RAxML-NG

por Hübner, Lukas, Kozlov, Alexey M, Hespe, Demian, Sanders, Peter, Stamatakis, Alexandros
Publicado 2021

Phylogeny-aware identification and correction of taxonomically mislabeled sequences

por Kozlov, Alexey M., Zhang, Jiajie, Yilmaz, Pelin, Glöckner, Frank Oliver, Stamatakis, Alexandros
Publicado 2016

Modeling Structural Constraints on Protein Evolution via Side-Chain Conformational States

por Perron, Umberto, Kozlov, Alexey M, Stamatakis, Alexandros, Goldman, Nick, Moal, Iain H
Publicado 2019

ModelTest-NG: A New and Scalable Tool for the Selection of DNA and Protein Evolutionary Models

por Darriba, Diego, Posada, David, Kozlov, Alexey M, Stamatakis, Alexandros, Morel, Benoit, Flouri, Tomas
Publicado 2020

EPA-ng: Massively Parallel Evolutionary Placement of Genetic Sequences

por Barbera, Pierre, Kozlov, Alexey M, Czech, Lucas, Morel, Benoit, Darriba, Diego, Flouri, Tomáš, Stamatakis, Alexandros
Publicado 2019

Phylogenetic Analysis of SARS-CoV-2 Data Is Difficult

por Morel, Benoit, Barbera, Pierre, Czech, Lucas, Bettisworth, Ben, Hübner, Lukas, Lutteropp, Sarah, Serdari, Dora, Kostaki, Evangelia-Georgia, Mamais, Ioannis, Kozlov, Alexey M, Pavlidis, Pavlos, Paraskevis, Dimitrios, Stamatakis, Alexandros
Publicado 2020

Eleven grand challenges in single-cell data science

por Lähnemann, David, Köster, Johannes, Szczurek, Ewa, McCarthy, Davis J., Hicks, Stephanie C., Robinson, Mark D., Vallejos, Catalina A., Campbell, Kieran R., Beerenwinkel, Niko, Mahfouz, Ahmed, Pinello, Luca, Skums, Pavel, Stamatakis, Alexandros, Attolini, Camille Stephan-Otto, Aparicio, Samuel, Baaijens, Jasmijn, Balvert, Marleen, Barbanson, Buys de, Cappuccio, Antonio, Corleone, Giacomo, Dutilh, Bas E., Florescu, Maria, Guryev, Victor, Holmer, Rens, Jahn, Katharina, Lobo, Thamar Jessurun, Keizer, Emma M., Khatri, Indu, Kielbasa, Szymon M., Korbel, Jan O., Kozlov, Alexey M., Kuo, Tzu-Hao, Lelieveldt, Boudewijn P.F., Mandoiu, Ion I., Marioni, John C., Marschall, Tobias, Mölder, Felix, Niknejad, Amir, Rączkowska, Alicja, Reinders, Marcel, Ridder, Jeroen de, Saliba, Antoine-Emmanuel, Somarakis, Antonios, Stegle, Oliver, Theis, Fabian J., Yang, Huan, Zelikovsky, Alex, McHardy, Alice C., Raphael, Benjamin J., Shah, Sohrab P., Schönhuth, Alexander
Publicado 2020