export(add.arrow, add.color.bar, add.everywhere, add.random, add.simmap.legend, add.species.to.genus, allFurcTrees, anc.Bayes)
export(anc.ML, anc.trend, ancThresh, applyBranchLengths, ave.rates)
export(fancyTree, fastAnc, fastBM, fastHeight, fastMRCA, findMRCA, fitBayes, fitDiversityModel, fitPagel)
export(ladderize.simmap, lambda.transform, likMlambda, locate.fossil, locate.yeti, ls.tree, ltt, ltt95)
export(ratebystate, rateshift, read.newick, read.simmap, reorder.backbonePhylo, reorderSimmap, rep.multiPhylo, rep.phylo, repPhylo)
export(reroot, rerootingMethod, rescaleSimmap, rotateNodes, roundBranches, roundPhylogram, rstate)
importFrom(ape, compute.brlen, cophenetic.phylo, di2multi, dist.dna, dist.nodes, drop.tip, edgelabels, extract.clade, is.binary.tree)
importFrom(ape, is.monophyletic, is.rooted, is.ultrametric, ladderize, matexpo, mrca, multi2di, neworder_phylo, neworder_pruningwise)

export(cladelabels, collapse.to.star, collapseTree, contMap, countSimmap)

importFrom(stats, cophenetic, reorder, runif, setNames, optim, dexp, dnorm, rnorm, var, nlminb, biplot, pchisq, rexp, optimize, logLik, as.dist, pnorm, median, cor, aggregate, rgamma, dgamma, lm, rbinom, rgeom, pt, anova, p.adjust, screeplot, rchisq, optimHess, rmultinom, sd, dunif)
importFrom(graphics, strwidth, par, segments, locator, lines, text, strheight, symbols, plot, layout, plot.new, title, axis, points, plot.window, polygon, rect, curve)
importFrom(utils, flush.console, installed.packages, str, capture.output)
importFrom(grDevices, palette, colors, dev.hold, dev.flush, rainbow, heat.colors, gray, colorRampPalette, dev.new, rgb)

export(cladelabels, collapse.to.star, collapseTree, contMap, cophylo, countSimmap)
export(fancyTree, fastAnc, fastBM, fastHeight, fastMRCA, findMRCA, fitBayes, fitMk, fitDiversityModel, fitPagel)
export(make.era.map, make.simmap, map.overlap, map.to.singleton, markChanges, matchNodes, mergeMappedStates)
export(midpoint.root, minRotate, minSplit, mrp.supertree, multi.mantel, multiC, multiRF)
export(plotBranchbyTrait, plot.contMap, plot.cophylo, plot.densityMap, plot.phylo.to.map, plotSimmap, plotThresh, plotTree)
export(sampleFrom, setMap, sim.corrs, sim.history, sim.ratebystate, sim.rates, skewers, splitEdgeColor, splitplotTree)
export(threshBayes, threshDIC, threshState, tipRotate, to.matrix, treeSlice)
importFrom(grDevices, palette, colors, dev.hold, dev.flush, rainbow, heat.colors, gray, colorRampPalette, dev.new, rgb,