Statistical Exploration of Landscapes of Phylogenetic Trees


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Documentation for package ‘treescape’ version 1.10.18

Help Pages

DengueBEASTMCC Dengue fever BEAST MCC tree
DengueSeqs Dengue fever sequences
DengueTrees BEAST analysis of Dengue fever
findGroves Identify clusters of similar trees
findMRCIs Find MRCIs
fluTrees BEAST analysis of seasonal influenza (A/H3N2)
linearMrca Linear MRCA function
medTree Geometric median tree function
multiDist Metric function for 'multiPhylo' input
plotGroves Scatterplot of groups of trees
plotGrovesD3 Scatterplot of groups of trees using 'scatterD3'
plotTreeDiff Plot tree differences
refTreeDist Metric function for comparing a reference 'phylo' to 'multiPhylo' input
tipDiff Find tip position differences
treeDist Metric function
treescape Phylogenetic tree exploration
treescapeServer Web-based tree explorer
treeVec Tree vector function
wiwMedTree Median transmission tree
wiwTreeDist Transmission tree distance
woodmiceTrees Bootstrap trees from woodmouse dataset