export(edge.widthMap, edgelabels.cophylo, edgeProbs, errorbar.contMap, estDiversity)
export(evol.rate.mcmc, evol.vcv, evolvcv.lite, exhaustiveMP, expand.clade, export.as.xml)
export(fit.yule, fitBayes, fitHRM, fitMk, fitmultiMk, fitpolyMk, fitDiversityModel)
export(plot.edge.widthMap, plot.fitMk, plot.fitPagel, plot.gfit, plot.phyl.RMA)
export(plot.phylo.to.map, plot.Qmatrix, plot.simBMphylo, plotBranchbyTrait, plot.phylosig)
export(plotSimmap, plotThresh, plotTree, plotTree.barplot, plotTree.boxplot)
export(plotTree.wBars, posterior.evolrate, posthoc, posthoc.ratebytree, print.Qmatrix)
export(sampleFrom, scores, scores.phyl.pca, setMap, sim.corrs, sim.ctt, sim.history)
export(sim.Mk, sim.multiCtt, sim.multiMk, sim.ratebystate, sim.rates, simBMphylo, skewers)
importFrom(ape, .PlotPhyloEnv, .uncompressTipLabel, ace, all.equal.phylo, as.DNAbin)
importFrom(ape, as.phylo, bind.tree, branching.times, collapse.singles, consensus)
importFrom(ape, compute.brlen, cophenetic.phylo, corBrownian, di2multi, dist.dna)
importFrom(ape, dist.nodes, drop.tip, edgelabels, extract.clade, getMRCA, is.binary)
importFrom(ape, is.monophyletic, is.rooted, is.ultrametric, ladderize, matexpo, mrca)
importFrom(ape, multi2di, nodelabels, Ntip, pic, plot.phylo, prop.part, read.tree)
importFrom(ape, reorder.phylo, root.phylo, rotate, rtree, stree, tiplabels, unroot, vcv)
importFrom(graphics, strwidth, par, segments, locator, lines, text, strheight, symbols)
importFrom(graphics, plot, layout, plot.new, title, axis, points, plot.window, polygon)
importFrom(graphics, rect, curve, image, mtext, arrows, barplot, boxplot, contour, hist)
importFrom(grDevices, palette, colors, dev.hold, dev.flush, rainbow, heat.colors, gray)
importFrom(grDevices, colorRampPalette, dev.new, rgb, pdf, dev.off, col2rgb)
importFrom(phangorn, allTrees, Ancestors, as.phyDat, dist.hamming, midpoint, NJ, nni)
importFrom(phangorn, nnls.tree, optim.parsimony, parsimony, phyDat, pratchet, treedist)
importFrom(phangorn, RF.dist, KF.dist, path.dist, SPR.dist, Children, Descendants)
importFrom(stats, cophenetic, reorder, runif, setNames, optim, dexp, dnorm, rnorm, var)
importFrom(stats, nlminb, biplot, pchisq, rexp, optimize, logLik, as.dist, pnorm, median)
importFrom(stats, cor, aggregate, rgamma, dgamma, lm, rbinom, rgeom, pt, anova, p.adjust)
importFrom(stats, screeplot, rchisq, optimHess, rmultinom, sd, dunif, dist, plogis)