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amp

Assessing Phylogenetic Model Fit with Posterior Prediction

brownthomsonfigures

Figures for Brown and Thomson (2017) Bayes factors unmask highly variable information content, bias, and extreme influence in phylogenomic analyses. Systematic Biology. Advance Access.

compphylo_spr17

Material for the Spring 2017 Computational Phylogenetics class

compphylo_spr2015

Code related to the Spring 2015 Computational Phylogenetics class at LSU.

customfunctions_plotting_week11_inprogress

empprior

Using empirical data to inform branch-length priors for Bayesian phylogenetics

evolution2017

Poster and RevBayes code presented at Evolution 2017 in Portland

jembrown.github.io

lightningtimer

A timer for lightning talks by bomeara. Modified by jembrown for #ssb2017 meeting.

mrbayes_3.2.5_topomovefix

Modified version of MrBayes 3.2.5 to keep topological moves on, even in the presence of constraints

phyleauxlab.github.io

Lab of Jeremy M. Brown at Louisiana State University

posterior_predictive

pythonii_week8

pythonobjects_week12

Creating custom objects in Python

regularexpressions_week10

repmisspatterns

Detects the pattern of missing data found in one multiple sequence alignment and replicates it across many others

revbayes

revbayes_kernel

A Jupyter kernel for RevBayes

shell_week2

simpleabctutorial

BIOL7800-Software-Project

toymc3

A toy example of Metropolis-coupled Markov chain Monte Carlo (MC3)

transferbranchlabels

Program to take branch labels (e.g., support values) from an arbitrary number of labeled trees (e.g., majority-rule consensus from bootstrapped trees or a posterior distribution) and place any relevant labels on another (e.g., ML) tree. Topologies need not be identical or nested.

treemoves

treescaper

TreeScaper is distributed under the GNU General Public License.

treescaper.github.io

CloudForest website

treetoconstraints

Turns a bifurcating tree into its component bipartitions, each a separate newick string.

websiteimages

Images for http://www.phyleauxgenetics.org/