Man pages for maxbiostat/cladeCorrelation
Clade probabilities and correlations under uniform-on-topologies tree probability distributions;

compatibleReturns whether two clades are compatible
get_clade_elementsGet elements of a clade
get_clade_sizeReturns the size of a clade.
GnAuxiliary function for computing joint probabilities.
joint_prob_cladesComputes the joint probability for two clades for a given...
log_diff_expLogarithm of the difference between two logarithms
make_all_cladesCreate all (non-trivial) clades on 'n' taxa.
make_clade_corr_gridConstruct a grid of 'all vs all' correlations for a list of K...
make_clade_corr_matBuild the correlation matrix for a list of K clades on 'n'...
make_clade_cov_matBuild the variance-covariance matrix for a list of K clades...
make_clade_joint_matBuild the matrix of joint probabilities for a list of K...
max_corrMaximum possible correlation between clades on 'n' taxa.
min_corrMinimum possible correlation between clades on 'n' taxa.
pcladeProbability of a clade of size 'k' on 'n' taxa.
pcladesJoint probability of two clades
prob_cladeProbability of a clade under a PDA model on 'n' taxa.
prop_compatProportion of clades which are pairwise compatible.
rho_cladesComputes the correlation between two clades.
RnAuxiliary function for computing joint clade probability.
rrnAuxiliary function for computing joint probabilities
maxbiostat/cladeCorrelation documentation built on July 28, 2023, 2:42 a.m.