A function for summarizing the state of a model after a shift
shiftSummaries(chain, mcmc, pp.cutoff = 0.3, branches = NULL)A bayouMCMC chain
A bayou mcmc object
The threshold posterior probability for shifts to summarize, if 'branches' specified than this is ignored.
The specific branches with shifts to summarize, assuming postordered tree
A list with elements:
pars = a bayoupars list giving the location of shifts specified;
tree = The tree;
pred = Predictor variable matrix;
dat = A vector of the data;
SE = A vector of standard errors;
PP = Posterior probabilities of the specified shifts;
model = A list specifying the model used;
variables = The variables summarized;
cladesummaries = A list providing the medians and densities of the distributions of regression
variables for each shift;
descendents = A list providing the taxa that belong to each regime
regressions = A matrix providing the regression coefficients for each regime.
shiftSummaries summarizes the immediate parameter values after a shift on a particular branch. Parameters are summarized only for the duration that the particular shift exists. Thus, even global parameters will be different for particular shifts.