COR_DeltaDd             Function for calculating pairwise Delta D and
                        correlation between genetic differentiation
                        (Delta D) and geographic distance
COR_Fstd                Function for calculating pairwise Fst and
                        correlation coefficient between Fst (Weir and
                        Cockerham, 1984) and geographic distance
CorDdPlot               Plot the relation between genetic
                        differentiation (Delta D) and geographic
                        distance
DeltaDcorplot           Plot correlation matrix for pairwise Delta D
HierAr                  Calculating hierarchical allelic richness
HierD                   Function for calculating and decomposing
                        genetic diversity (D, q=1) and differentiation
                        (Delta D)
HierDjost               Hierarchical DJost
HierFst                 Function for calculating hierarchical genetic
                        differentiation (Fst) (Weir B.S., 1996; Yang
                        R.C.,1998)
HierHe                  Function for calculating hierarchical
                        heterozygosity
HierJd                  Hierarchical Jaccard dissimilarity
Hierpertest             Test the significance among aggregates
                        (regions, ecosystems...)
IDIP                    Function for decomposing diversity (genetic or
                        species diversity) and differentiation into
                        different hierarchical levels
Ldisper                 Test significance of dispersion among
                        subaggregate within aggregate
Str                     Function for generating the structure for
                        HierDpart format
boot.ppDeltaD           Bootstrapping test of pairwise allelic
                        differentiation (Delta D) between populations
permutate.DeltaD        Permutation test for allelic differentiation
                        (Delta D)
plot.aggregates         Plot aggregates with dispersions (variances)
plot_pcoa_aggregate     Draw the aggregation plot for allelic
                        differentiation
plotdiff1               Plot genetic differentiation (Delta D) across
                        loci
print_boot_ppDeltaD     Print the bootstrapping result for pairwise
                        allelic differentiation (Delta D)
pwDeltaD                Pairwise Shannon differentiation (Delta D)
pwag.permutest          Permutation test for allelic differentiation
                        (Delta D) among subaggregates within aggregate
qD                      Function for calculating genetic diversity
                        profile (q=0,1,2)
qDplot                  Plot the genetic diversity profiles (q=0,1,2)
