Phyloseminar
http://phyloseminar.org/
phyloseminar -- a free online seminar about phylogeneticsphyloseminarhttps://feedburner.google.com
Paul Lewis: Primer part 3b: introduction to Bayesian phylogenetics, 2018-06-27 09:00 PDT
http://phyloseminar.org/
<p>This series of 4 talks will be an introduction to phylogenetics in 4 parts from master expositor Paul Lewis.</p>
<p>Part 3b continues part 3a with proposals (updating model parameters or trees during MCMC), prior distributions, hierarchical models, and Bayes factors.</p>2018-06-20T14:00:00-07:0079lewis
Paul Lewis: Primer part 3a: introduction to Bayesian statistics, 2018-06-20 09:00 PDT
http://phyloseminar.org/
<p>This series of 4 talks will be an introduction to phylogenetics in 4 parts from master expositor Paul Lewis.</p>
<p>Part 3 is an introduction to Bayesian statistics and how it is used in phylogenetics. This part is divided into parts 3a and 3b. Part 3a explains Bayes Rule, the difference between probabilities and probability densities, the difference between joint, conditional and marginal probabilities, and illustrates how MCMC is used to approximate posterior probability distributions.</p>2018-05-17T14:00:00-07:0078lewis
Paul Lewis: Primer part 2: tree likelihood and rate heterogeneity, 2018-05-16 09:00 PDT
http://phyloseminar.org/
<p>This series of 4 talks will be an introduction to phylogenetics in 4 parts from master expositor Paul Lewis.</p>
<p>Part 2 explains how the likelihood is calculated for trees, how parameters of models are estimated, and how missing data and unknown ancestral states are accommodated. This part ends with an introduction to three major ways of modeling among site rate heterogeneity (site-specific rates and the +I and +G models).</p>2018-04-18T14:00:00-07:0077lewis
Paul Lewis: Primer part 1: tree terminology and substitution models, 2018-04-18 09:00 PDT
http://phyloseminar.org/
<p>This series of 4 talks will be an introduction to phylogenetics in 4 parts from master expositor Paul Lewis.</p>
<p>Part 1 covers terminology used in describing phylogenetic trees and the basic features of substitution models, including a survey of the common GTR family of models as well as codon and amino acid models.</p>2018-04-11T14:00:00-07:0076lewis
Josef Uyeda: On the need for phylogenetic natural history, 2018-02-23 09:00 PST
http://phyloseminar.org/
<p>The availability of phylogenetic trees based on molecular sequence data has revolutionized evolutionary biology by providing a map from which we can understand divergence and diversification across the tree of life. Numerous phylogenetic comparative approaches have opened up new avenues for testing macroevolutionary hypotheses regarding the drivers of the tempo and mode of trait evolution and lineage diversification. However, recent crises in the field have suggested that many of the methods we commonly use don't tell us what we would like them to. Specifically, I will show that unreplicated evolutionary events can break nearly every comparative method for testing associations from phylogenetically structured data. I will argue that one solution to this problem is to unite hypothesis testing with data-driven approaches, which I term "phylogenetic natural history", to disentangle the impact of singular shifts from replicated patterns of association. More generally, I will argue that we should abandon thinking of phylogenetic comparative methods as "corrections for statistical non-independence" and more meaningfully confront how our causal hypotheses map on to phylogenetically structured data.</p>2018-01-17T10:00:00-08:0074uyeda