|
- First Tutorial | BEAST Documentation
Running BEAST for the first time This tutorial will guide you through running BEAST and some of its accessory programs to do a simple phylogenetic analysis If you haven’t already, download and install BEAST following these instructions
- Estimating rates and dates from time-stamped sequences | BEAST . . .
To inform BEAUti BEAST about the sampling dates of the sequences, go to the Tips menu and select the “Use tip dates” option By default all the taxa are assumed to have a date of zero (i e the sequences are assumed to be sampled at the same time; BEAST considers the present or most recent sampling time as time 0)
- Frequently Asked Questions | BEAST Documentation
BEAST is a cross-platform program for Bayesian analysis of molecular sequences using MCMC It is entirely orientated towards rooted, time-measured phylogenies inferred using strict or relaxed molecular clock models It can be used as a method of reconstructing phylogenies but is also a framework for testing evolutionary hypotheses without conditioning on a single tree topology BEAST uses MCMC
- BEAST Software - Bayesian Evolutionary Analysis Sampling Trees | BEAST . . .
BEAST is a cross-platform program for Bayesian analysis of molecular sequences using MCMC It is entirely orientated towards rooted, time-measured phylogenies inferred using strict or relaxed molecular clock models
- Phylogeographic diffusion in discrete space | BEAST Documentation
Click Copy and open the link in a new browser tab window To summarise Bayes factor support for rates, select the Discrete Rates tab Load the output BEAST file containing the spatial rates and rate indicators (batRABV state rates log) and the coordinates in the locationStates txt file, and set an appropriate burn-in level Click, Start analysis
- FigTree | BEAST Documentation
FigTree is a program for viewing trees, including summary information produced by TreeAnnotator, and producing publication quality figures
- BEAGLE | BEAST Documentation
Using BEAGLE with BEAST BEAGLE is a high-performance library that can perform the core calculations at the heart of most Bayesian and Maximum Likelihood phylogenetics package It can make use of highly-parallel processors such as those in graphics processing units (GPUs) found in many PCs The current version of BEAGLE will only work with BEAST v1 6 or later Downloading and installing BEAGLE
- Downloading and installing BEAST on UNIX Linux
BEAST is a software package for phylogenetic analysis with an emphasis on time-scaled trees Downloading BEAST Installing using Conda Installing directly Installing OpenJDK 8 Installing Oracle Java 8 Installing BEAST Downloading and running BEAST on Linux Adding the executables to the system path Creating symbolic links in a directory of choice
|
|
|