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Bookmark or Share- Phylogeographic diffusion in discrete space | BEAST DocumentationPhylogeographic diffusion in discrete space. This chapter provides a step-by-step tutorial on reconstructing the spatial dispersal and cross-species dynamics of rabies virus (RABV) in North American bat populations based on a set of 372 nucleoprotein gene sequences (nucleotide positions: 594–1353). The data set comprises a total of 17 bat ...
- FigTree | BEAST DocumentationFeatures. Cross-platform graphical tree display. Three different tree styles: rectangular, polar and radial. Display of node heights, branch lengths, support values and other annotations. Node height range bars if available. Collapse of clades into triangles. Colouring of branches and tip labels. Colouring by annotation (for example, support ...
- TempEst | BEAST DocumentationTempEst (formerly known as ‘Path-O-Gen’) is a tool for investigating the temporal signal and ‘clocklikeness’ of molecular phylogenies. It can read and analyse contemporaneous trees (where all sequences have been collected at the same time) and dated-tip trees (where sequences have been collected at different dates).
- Tracer | BEAST DocumentationTracer. Tracer is a graphical tool for visualization and diagnostics of MCMC output. Tracer (now at version 1.7.2) is a software package for visualising and analysing the MCMC trace files generated through Bayesian phylogenetic inference. Tracer provides kernel density estimation, multivariate visualisation, demographic trajectory ...
- 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. It can be used as a method of reconstructing phylogenies but is also a framework for testing evolutionary hypotheses without ...
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