RAxML-III: a fast program for maximum likelihood-based inference of large phylogenetic trees

MRBAYES: Bayesian inference of phylogenetic trees

2001 • 21,317 citations

A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood

2003 • 16,546 citations

Evolutionary trees from DNA sequences: A maximum likelihood approach

1981 • 14,097 citations

PAUP^* : Phylogenetic Analysis Using Parsimony (and other methods) 4.0b8

2001 • 13,157 citations

Dating of the human-ape splitting by a molecular clock of mitochondrial DNA

1985 • 8,642 citations

ARB: a software environment for sequence data

2004 • 6,697 citations

PAML: a program package for phylogenetic analysis by maximum likelihood

1997 • 5,344 citations

Bayesian Inference of Phylogeny and Its Impact on Evolutionary Biology

2001 • 2,721 citations

Quartet Puzzling: A Quartet Maximum-Likelihood Method for Reconstructing Tree Topologies

1996 • 2,613 citations

Phylogenetics of Seed Plants: An Analysis of Nucleotide Sequences from the Plastid Gene rbcL

1993 • 2,018 citations

r8s: inferring absolute rates of molecular evolution and divergence times in the absence of a molecular clock

2003 • 1,806 citations

Seq-Gen: an application for the Monte Carlo simulation of DNA sequence evolution along phylogenetic trees

1997 • 1,675 citations

A new method for calculating evolutionary substitution rates

1984 • 1,437 citations

fastDNAml: a tool for construction of phylogenetic trees of DNA sequences using maximum likelihood

1994 • 1,146 citations

Potential Applications and Pitfalls of Bayesian Inference of Phylogeny

2002 • 832 citations

Phylogeny estimation: traditional and Bayesian approaches

2003 • 636 citations

A genetic algorithm for maximum-likelihood phylogeny inference using nucleotide sequence data

1998 • 251 citations

Links between maximum likelihood and maximum parsimony under a simple model of site substitution

1997 • 250 citations

Links between maximum likelihood and maximum parsimony under a simple model of site substitution

1997 • 244 citations

The metapopulation genetic algorithm: An efficient solution for the problem of large phylogeny estimation

2002 • 203 citations

Assessment of the Accuracy of Matrix Representation with Parsimony Analysis Supertree Construction

2001 • 150 citations

Parallel implementation and performance of fastDNAml

2001 • 100 citations

Genetic Algorithms and Parallel Processing in Maximum-Likelihood Phylogeny Inference

2002 • 89 citations

An investigation of phylogenetic likelihood methods

2003 • 46 citations

New fast and accurate heuristics for inference of large phylogenetic trees

2004 • 28 citations

Parallel Inference of a 10.000-Taxon Phylogeny with Maximum Likelihood

2004 • 24 citations

Accelerating Parallel Maximum Likelihood-Based Phylogenetic Tree Calculations Using Subtree Equality Vectors

2002 • 13 citations

Isomorphic factorisations VI: Automorphisms

1979 • 11 citations