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William Fletcher et al.
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Andreas Hejnol et al.
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Bengt Sennblad et al.
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A class frequency mixture model that adjusts for site-specific amino acid frequencies and improves inference of protein phylogeny
Huai-Chun Wang et al.
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Using ESTs for phylogenomics: Can one accurately infer a phylogenetic tree from a gappy alignment?
Stefanie Hartmann et al.
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A mixed branch length model of heterotachy improves phylogenetic accuracy
Bryan Kolaczkowski et al.
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Phylogeny-aware gap placement prevents errors in sequence alignment and evolutionary analysis
Ari Loytynoja et al.
SCIENCE (2008)
Does choice in model selection affect maximum likelihood analysis?
Jennifer Ripplinger et al.
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AWTY (are we there yet?): a system for graphical exploration of MCMC convergence in Bayesian phylogenetics
Johan A. A. Nylander et al.
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Fair-balance paradox, star-tree paradox, and Bayesian phylogenetics
Ziheng Yang
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TOPD/FMTS:: a new software to compare phylogenetic trees
Pere Puigbo et al.
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Genome analysis linking recent European and African influenza (H5N1) viruses
Steven L. Salzberg et al.
EMERGING INFECTIOUS DISEASES (2007)
RAxML-VI-HPC: Maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
Alexandros Stamatakis
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Approximate likelihood-ratio test for branches: A fast, accurate, and powerful alternative
Maria Anisimova et al.
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Discordance of species trees with their most likely gene trees
James H. Degnan et al.
PLOS GENETICS (2006)
Multiple sequence alignment accuracy and phylogenetic inference
TH Ogden et al.
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A short proof that phylogenetic tree reconstruction by maximum likelihood is hard
S Roch
IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS (2006)
Simultaneous statistical multiple alignment and phylogeny reconstruction
R Fleissner et al.
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The net of life: Reconstructing the microbial phylogenetic network
V Kunin et al.
GENOME RESEARCH (2005)
Joint Bayesian estimation of alignment and phylogeny
BD Redelings et al.
SYSTEMATIC BIOLOGY (2005)
RAxML-III: a fast program for maximum likelihood-based inference of large phylogenetic trees
A Stamatakis et al.
BIOINFORMATICS (2005)
DNA assembly with gaps (Dawg): simulating sequence evolution
RA Cartwright
BIOINFORMATICS (2005)
A phylogenetic mixture model for detecting pattern-heterogeneity in gene sequence or character-state data
M Pagel et al.
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Does a tree-like phylogeny only exist at the tips in the prokaryotes?
CJ Creevey et al.
PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES (2004)
A Bayesian mixture model for across-site heterogeneities in the amino-acid replacement process
N Lartillot et al.
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Frequent inconsistency of parsimony under a simple model of cladogenesis
JP Huelsenbeck et al.
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A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood
S Guindon et al.
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OrthoMCL: Identification of ortholog groups for eukaryotic genomes
L Li et al.
GENOME RESEARCH (2003)
MrBayes 3: Bayesian phylogenetic inference under mixed models
F Ronquist et al.
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Comparison of Bayesian and maximum likelihood bootstrap measures of phylogenetic reliability
CJ Douady et al.
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Bayes or bootstrap? A simulation study comparing the performance of Bayesian Markov chain Monte Carlo sampling and bootstrapping in assessing phylogenetic confidence
ME Alfaro et al.
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Phylogenetic relationships of the dwarf boas and a comparison of Bayesian and bootstrap measures of phylogenetic support
TP Wilcox et al.
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Increased taxon sampling greatly reduces phylogenetic error
DJ Zwickl et al.
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