Alexei J. Drummond

发表

Recursive algorithms for phylogenetic tree counting

David Welch, Alexandra Gavryushkina, Alexei J. Drummond, 2013, Algorithms for Molecular Biology.

Bayesian coestimation of phylogeny and sequence alignment

István Miklós, Jotun Hein, Alexei J. Drummond, 2005, BMC Bioinformatics.

Computational statistical inference for molecular evolution and population genetics.

Alexei J. Drummond, A. Drummond, 2002 .

Bayesian Inference of Sampled Ancestor Trees for Epidemiology and Fossil Calibration

Tanja Stadler, David Welch, Alexandra Gavryushkina, 2014, PLoS Comput. Biol..

The Genealogical Population Dynamics of HIV-1 in a Large Transmission Chain: Bridging within and among Host Evolutionary Rates

Guy Baele, Anne-Mieke Vandamme, Alexei J. Drummond, 2014, PLoS Comput. Biol..

Statistical Alignment: Recent Progress, New Applications, and Challenges

István Miklós, Alexei J. Drummond, Gerton Lunter, 2005 .

BEAST 2: A Software Platform for Bayesian Evolutionary Analysis

Dong Xie, Remco R. Bouckaert, Alexei J. Drummond, 2014, PLoS Comput. Biol..

Reconstruction of an HIV Transmission History in a Bayesian Coalescent Framework

Guy Baele, Anne-Mieke Vandamme, Alexei J. Drummond, 2013, IWBBIO.

A brief introduction to the Phylogenetic Analysis Library version 1.5

Edward S. Buckler, Allen G. Rodrigo, Alexei J. Drummond, 2004 .

Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data

Shane S. Sturrock, Alexei J. Drummond, Chris Duran, 2012, Bioinform..

Sifting Through Tangled Trees: Bayesian Reconstruction of Cophylogenies

Alexei J. Drummond, Timothy G. Vaughan, Arman Bilge, 2015 .

BEAST2: Bayesian evolutionary analysis sampling trees

Remco R. Bouckaert, Alexei J. Drummond, Marc A. Suchard, 2014 .

Bayesian phylodynamics of avian influenza virus H9N2 in Asia with time-dependent predictors of migration

Remco R. Bouckaert, Alexei J. Drummond, Nicola F. Müller, 2018, PLoS Comput. Biol..

Bayesian inference and comparison of stochastic transcription elongation models

Jordan Douglas, Alexei J. Drummond, Richard L. Kingston, 2018, bioRxiv.

PAL: an object-oriented programming library for molecular evolution and phylogenetics

Korbinian Strimmer, Alexei J. Drummond, K. Strimmer, 2001, Bioinform..

BEAST 2.5: An advanced software platform for Bayesian evolutionary analysis

Sebastián Duchêne, Graham Jones, Igor Siveroni, 2018, bioRxiv.

Bayesian Evolutionary Analysis with BEAST

Remco R. Bouckaert, Alexei J. Drummond, R. Bouckaert, 2015 .

A retrodictive stochastic simulation algorithm

Peter D. Drummond, Alexei J. Drummond, Timothy G. Vaughan, 2010, J. Comput. Phys..

Bayesian Phylogeography Finds Its Roots

Alexei J. Drummond, Marc A. Suchard, Andrew Rambaut, 2009, PLoS Comput. Biol..

StarBEAST2 brings faster species tree inference and accurate estimates of substitution rates

Huw A. Ogilvie, Remco R. Bouckaert, Alexei J. Drummond, 2016 .

Bayesian Phylogenetic Inference under a Statistical Insertion-Deletion Model

István Miklós, Jotun Hein, Alexei J. Drummond, 2003, WABI.

Synonymous Substitution Rates Predict HIV Disease Progression as a Result of Underlying Replication Dynamics

Sergei L. Kosakovsky Pond, Beth Shapiro, Alexei J. Drummond, 2007, PLoS Comput. Biol..

Coding and design patterns

Remco R. Bouckaert, Alexei J. Drummond, 2015 .

Efficient Bayesian inference under the structured coalescent

David Welch, Alexei J. Drummond, Denise Kühnert, 2014, Bioinform..

The Phylogenetic Handbook: Bayesian evolutionary analysis by sampling trees

Alexei J. Drummond, Andrew Rambaut, A. Rambaut, 2009 .

Inferring Species Trees Using Integrative Models of Species Evolution

Tanja Stadler, Huw A. Ogilvie, Alexei J. Drummond, 2018, bioRxiv.

Calibrated Birth–Death Phylogenetic Time-Tree Priors for Bayesian Inference

Alexei J. Drummond, Joseph Heled, A. Drummond, 2013, Systematic biology.

Clock-constrained tree proposal operators in Bayesian phylogenetic inference

Michael Defoin-Platel, Alexei J. Drummond, Sebastian Höhna, 2008, 2008 8th IEEE International Conference on BioInformatics and BioEngineering.

Supplementary Data Files

Huw A. Ogilvie, Alexei J. Drummond, Dong Xie, 2015 .

A Brief Introduction to the Phylogentics Analysis Library V1.5

Korbinian Strimmer, Allen G. Rodrigo, Alexei J. Drummond, 2004, APBC.

Fast Bayesian inference of phylogenies from multiple continuous characters

Alexei J. Drummond, Fábio K. Mendes, Rong Zhang, 2021, bioRxiv.

Calibrated Tree Priors for Relaxed Phylogenetics and Divergence Time Estimation

Alexei J. Drummond, Joseph Heled, A. Drummond, 2011, Systematic biology.

Inference of species histories in the presence of gene flow

Tanja Stadler, Huw A. Ogilvie, Alexei J. Drummond, 2018, bioRxiv.

Phylodynamics with Migration: A Computational Framework to Quantify Population Structure from Genomic Data

Tanja Stadler, Alexei J. Drummond, Denise Kühnert, 2016, Molecular biology and evolution.

A Stochastic Simulator of Birth–Death Master Equations with Application to Phylodynamics

Alexei J. Drummond, Timothy G. Vaughan, A. Drummond, 2013, Molecular biology and evolution.

Bayesian Selection of Nucleotide Substitution Models and Their Site Assignments

Alexei J. Drummond, Marc A. Suchard, M. Suchard, 2012, Molecular biology and evolution.

Estimating Epidemic Incidence and Prevalence from Genomic Data

Tanja Stadler, David Welch, Alexei J. Drummond, 2017, bioRxiv.

Bayesian Total-Evidence Dating Reveals the Recent Crown Radiation of Penguins

Tanja Stadler, David Welch, Alexandra Gavryushkina, 2015, Systematic biology.

Bayesian Inference of Species Networks from Multilocus Sequence Data

Tanja Stadler, Huw A. Ogilvie, Alexei J. Drummond, 2017 .

Rise and Fall of the Beringian Steppe Bison

Beth Shapiro, Alexei J. Drummond, Andrew Rambaut, 2004, Science.

How Accurate and Robust Are the Phylogenetic Estimates of Austronesian Language Relationships?

Simon J. Greenhill, Russell D. Gray, Alexei J. Drummond, 2010, PloS one.

Computational Performance and Statistical Accuracy of *BEAST and Comparisons with Other Methods

Huw A. Ogilvie, Alexei J. Drummond, Dong Xie, 2015, Systematic biology.

Simultaneous reconstruction of evolutionary history and epidemiological dynamics from viral sequences with the birth–death SIR model

Tanja Stadler, Alexei J. Drummond, Denise Kühnert, 2013, Journal of The Royal Society Interface.

Phylogenetic and epidemic modeling of rapidly evolving infectious diseases

Alexei J. Drummond, Denise Kühnert, Chieh-Hsi Wu, 2011, Infection, Genetics and Evolution.