DengueTrees


These trees were created using one of the <code>xml</code> files provided with the original BEAST paper by Drummond and Rambaut (2007).
They provide an example of 17 dengue virus serotype 4 sequences from Lanciotti et al. (1997) (available as <code><a rd-options="" href="/link/DengueSeqs?package=treescape&version=1.10.18" data-mini-rdoc="treescape::DengueSeqs">DengueSeqs</a></code>) and <code>xml</code> files with varying priors for model and clock rate.
Here we include a random sample of 500 of the trees (from the second half of the posterior) produced using BEAST v1.8 with the standard GTR + Gamma + I substitution model with uncorrelated lognormal-distributed relaxed molecular clock (file 4).


datasets

Tools for the exploration of distributions of phylogenetic trees.
This package includes a shiny interface which can be started from R using
'treescapeServer()'.

Michelle Kendall

treescape

Statistical Exploration of Landscapes of Phylogenetic Trees

DengueTrees function

A multiPhylo object containing 500 trees, each with 17 tips

Format

http://bmcevolbiol.biomedcentral.com/articles/10.1186/1471-2148-7-214

Source


These trees were created using one of the <code>xml</code> files provided with the original BEAST paper by Drummond and Rambaut (2007).
They provide an example of 17 dengue virus serotype 4 sequences from Lanciotti et al. (1997) (available as <code><a rd-options='' href='DengueSeqs'>DengueSeqs</a></code>) and <code>xml</code> files with varying priors for model and clock rate.
Here we include a random sample of 500 of the trees (from the second half of the posterior) produced using BEAST v1.8 with the standard GTR + Gamma + I substitution model with uncorrelated lognormal-distributed relaxed molecular clock (file 4).


DengueTrees: BEAST analysis of Dengue fever

Description

Arguments

Format

Source

References