bpec | Bayesian Phylogeographic and Ecological Clustering (BPEC) |
bpec.contourPlot | Plot contours of inferred clusters on geographical map |
bpec.covariatesPlot | Plot posterior marginal distribution of each covariate for the inferred clusters |
bpec.geoTree | Phylogeographic GoogleEarth plot |
bpec.loadCoords | Load location data |
bpec.loadSeq | Load sequence data |
bpec.mcmc | Markov chain Monte Carlo sampler for BPEC |
bpec.treePlot | Treeplot indicating cluster membership |
CladeBrownFrogsCoordsLocs | Coordinates and haplotypes for the Brown Frog dataset |
CladeBrownFrogsRawSeqs | Sequences for the Brown Frog dataset |
input | Load location data |
input.bpec | Load location data |
MacrocnemisCoordsLocs | Coordinates and haplotypes for the R.macrocnemis Brown Frog dataset |
MacrocnemisCoordsLocsMini | Coordinates and haplotypes for the R.macrocnemis Brown Frog dataset |
MacrocnemisRawSeqs | Sequences for the R.macrocnemis Brown Frog dataset |
mean.bpec | Bayesian Phylogeographic and Ecological Clustering (BPEC) |
output.clust | Load location data |
output.clust.bpec | Load location data |
output.mcmc | Load location data |
output.mcmc.bpec | Load location data |
output.tree | Load location data |
output.tree.bpec | Load location data |
plot.bpec | Bayesian Phylogeographic and Ecological Clustering (BPEC) |
preproc | Load location data |
preproc.bpec | Load location data |
print.bpec | Bayesian Phylogeographic and Ecological Clustering (BPEC) |
summary.bpec | Bayesian Phylogeographic and Ecological Clustering (BPEC) |
TransalpinaCoordsLocs | Coordinates and haplotypes for the burnet moth dataset. |
TransalpinaRawSeqs | Sequences for the burnet moth dataset. |