L1.dist                 Different distances between two given vectors
L2.norm                 L2 norm of a given vector
Pval.dist               p-value of a given similarity value
RtreemixData-class      Class "RtreemixData"
RtreemixGPS-class       Class "RtreemixGPS"
RtreemixModel-class     Class "RtreemixModel"
RtreemixSim-class       Class "RtreemixSim"
RtreemixStats-class     Class "RtreemixStats"
bootstrap-methods       Method for fitting a mutagenetic trees mixture
                        model and analyzing its variance
comp.models             Functions for comparing the tree topologies of
                        two mutagenetic trees mixture models
comp.trees              Functions for quantifying the diversity of the
                        nontrivial trees in a mutagenetic trees mixture
                        model
confIntGPS-methods      Method for calculating GPS values and their 95%
                        bootstrap confidence intervals
distribution-methods    Method for generating the (scaled) probablility
                        distribution induced with a given mutagenetic
                        trees mixture model
fit-methods             Method for fitting mutagenetic trees mixture
                        model to a given dataset
generate-methods        Method for generating a random mutagenetic
                        trees mixture model
get.tree.levels         Function for constructing level vectors
gps-methods             Methods for predicting the GPS of given dataset
                        by using a given mutagenetic trees mixture
                        model
hiv.data                Example of an RtreemixData object
kullback.leibler        Kullback-Leibler divergence
likelihoods-methods     Method for predicting the likelihoods of a set
                        of samples with respect to a mutagenetic trees
                        mixture model
plot-methods            Method for visualizing mutagenetic trees
                        mixture models
sim-methods             Method for simulating data from a mutagenetic
                        trees mixture model
stability.sim           Stability analysis of the mutagenetic trees
                        mixture model
