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Molecular phylogenetics: principles and practice
Phylogenies are important for addressing various biological questions such as relationships
among species or genes, the origin and spread of viral infection and the demographic …
among species or genes, the origin and spread of viral infection and the demographic …
A biologist's guide to Bayesian phylogenetic analysis
Bayesian methods have become very popular in molecular phylogenetics due to the
availability of user-friendly software for running sophisticated models of evolution. However …
availability of user-friendly software for running sophisticated models of evolution. However …
RevBayes: Bayesian phylogenetic inference using graphical models and an interactive model-specification language
Programs for Bayesian inference of phylogeny currently implement a unique and fixed suite
of models. Consequently, users of these software packages are simultaneously forced to …
of models. Consequently, users of these software packages are simultaneously forced to …
GUIDANCE2: accurate detection of unreliable alignment regions accounting for the uncertainty of multiple parameters
Inference of multiple sequence alignments (MSAs) is a critical part of phylogenetic and
comparative genomics studies. However, from the same set of sequences different MSAs …
comparative genomics studies. However, from the same set of sequences different MSAs …
[کتاب][B] Bayesian evolutionary analysis with BEAST
AJ Drummond, RR Bouckaert - 2015 - books.google.com
What are the models used in phylogenetic analysis and what exactly is involved in Bayesian
evolutionary analysis using Markov chain Monte Carlo (MCMC) methods? How can you …
evolutionary analysis using Markov chain Monte Carlo (MCMC) methods? How can you …
Improving the accuracy of demographic and molecular clock model comparison while accommodating phylogenetic uncertainty
Recent developments in marginal likelihood estimation for model selection in the field of
Bayesian phylogenetics and molecular evolution have emphasized the poor performance of …
Bayesian phylogenetics and molecular evolution have emphasized the poor performance of …
Map** the origins and expansion of the Indo-European language family
There are two competing hypotheses for the origin of the Indo-European language family.
The conventional view places the homeland in the Pontic steppes about 6000 years ago. An …
The conventional view places the homeland in the Pontic steppes about 6000 years ago. An …
Resolving difficult phylogenetic questions: why more sequences are not enough
In the quest to reconstruct the Tree of Life, researchers have increasingly turned to
phylogenomics, the inference of phylogenetic relationships using genome-scale data (Box …
phylogenomics, the inference of phylogenetic relationships using genome-scale data (Box …
BEAST: Bayesian evolutionary analysis by sampling trees
Background The evolutionary analysis of molecular sequence variation is a statistical
enterprise. This is reflected in the increased use of probabilistic models for phylogenetic …
enterprise. This is reflected in the increased use of probabilistic models for phylogenetic …
Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments
Alignment quality may have as much impact on phylogenetic reconstruction as the
phylogenetic methods used. Not only the alignment algorithm, but also the method used to …
phylogenetic methods used. Not only the alignment algorithm, but also the method used to …