Fast and Exact Algorithms for Computing Phylogenetic Biodiversity Measures

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Documentation for package ‘PhyloMeasures’ version 2.1

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PhyloMeasures-package PhyloMeasures: Fast Computations of Phylogenetic Biodiversity Measures
cac.moments Computes the statistical moments of the Core Ancestor Cost measure
cac.pvalues Computes the p-values of the Core Ancestor Cost measure
cac.query Computes the (standardized) value of the Core Ancestor Cost measure
cbl.moments Computes the moments of the Common Branch Length measure under the uniform null model
cbl.query Computes the (standardized) value of the Common Branch Length measure
cd.moments Computes the moments of the Community Distance measure under the uniform null model
cd.query Computes the (standardized) value of the Community Distance measure
cdnt.averaged.query Computes the value of the averaged Community Distance Nearest Taxon measure
cdnt.directed.query Computes the value of the directed Community Distance Nearest Taxon measure
cdnt.query Computes the value of the maximised Community Distance Nearest Taxon measure
mntd.moments Computes the moments of the Mean Nearest Taxon Distance measure
mntd.pvalues Computes the p-values of the Mean Nearest Taxon Distance measure
mntd.query Computes the (standardized) value of the Mean Nearest Taxon Distance measure
mpd.moments Computes the moments of the Mean Pairwise Distance measure
mpd.pvalues Computes the p-values of the Mean Pairwise Distance measure
mpd.query Computes the (standardized) value of the Mean Pairwise Distance measure
pd.moments Computes the moments of the Phylogenetic Diversity measure
pd.pvalues Computes the p-values of the unrooted Phylogenetic Diversity measure
pd.query Computes the (standardized) value of the unrooted Phylogenetic Diversity measure
PhyloMeasures PhyloMeasures: Fast Computations of Phylogenetic Biodiversity Measures
phylosor.query Computes the value of the Phylogenetic Sorensen's Similarity measure
unifrac.query Computes the value of the Unique Fraction measure