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treescape (version 1.8.16)

Statistical Exploration of Landscapes of Phylogenetic Trees

Description

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

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Version

Install

install.packages('treescape')

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Version

1.8.16

License

GPL (>= 2)

Maintainer

Michelle Kendall

Last Published

April 1st, 2016

Functions in treescape (1.8.16)

DengueTrees

BEAST analysis of Dengue fever

multiDist

Metric function for multiPhylo input

linearMrca

Linear MRCA function

refTreeDist

Metric function for comparing a reference phylo to multiPhylo input

findGroves

Identify clusters of similar trees

medTree

Geometric median tree function

treeDist

Metric function

woodmiceTrees

Bootstrap trees from woodmouse dataset

plotGrovesD3

Scatterplot of groups of trees using scatterD3

treescapeServer

Web-based tree explorer

plotGroves

Scatterplot of groups of trees

treescape

Phylogenetic tree exploration

treeVec

Tree vector function

fluTrees

BEAST analysis of seasonal influenza (A/H3N2)