| AIc | Calculates corrected Assignment Index |
| allele.count | Allelic counts |
| allelic.richness | Estimates allelic richness |
| basic.stats | Basic statistics |
| betas | Estimate betas per population and a bootstrap confidence interval |
| boot.ppfis | Performs bootstrapping over loci of population's Fis |
| boot.ppfst | Performs bootstrapping over loci of pairwise Fst |
| boot.vc | Bootstrap confidence intervals for variance components |
| crocrussula | Genotypes and sex of 140 shrews Crocidura russula |
| eucl.dist | Estimates euclidian distances |
| eucl.dist.trait | calculates euclidian distance among populations for a trait |
| exhier | Example data set with 4 levels, one diploid and one haploid locus |
| FST | Wrapper for fst estimator from hierfstat package (from adegenet) |
| fst | Wrapper for fst estimator from hierfstat package (from adegenet) |
| fstat | Wrapper for fst estimator from hierfstat package (from adegenet) |
| g.stats | Calculates likelihood-ratio G-statistic on contingency table |
| g.stats.glob | Likelihood ratio G-statistic over loci |
| genet.dist | Classical genetic distances estimation |
| genind2hierfstat | Converts genind objects from adegenet into a hierfstat data frame |
| genot2al | Separates diploid genotypes in its constituant alleles |
| getal | Converts diploid genotypic data into allelic data |
| getal.b | Converts diploid genotypic data into allelic data |
| gstat.randtest | Goudet's G-statistic Monte Carlo test for genind object |
| gtrunchier | Genotypes at 6 microsatellite loci of Galba truncatula from different patches in Western Switzerland |
| hierfstat | General information on the hierfstat package |
| ind.count | individual counts |
| indpca | PCA on a matrix of individuals genotypes frequencies |
| mat2vec | Rewrite a matrix as a vecor |
| nb.alleles | Number of different alleles |
| pairwise.fst | Wrapper for fst estimator from hierfstat package (from adegenet) |
| pairwise.neifst | Estimate pairwise FSTs according to Nei (1987) |
| pairwise.WCfst | Estimate pairwise FSTs according to Weir and Cockerham (1984) |
| pcoa | Principal coordinate analysis |
| plot.indpca | PCA on a matrix of individuals genotypes frequencies |
| pop.freq | Allelic frequencies |
| pp.fst | fst per pair |
| pp.sigma.loc | wrapper to return per locus variance components |
| print.basic.stats | Basic statistics |
| print.indpca | PCA on a matrix of individuals genotypes frequencies |
| print.pp.fst | print function for pp.fst |
| print.wc | Computes Weir and Cockrham estimates of Fstatistics |
| qn2.read.fstat | Read QuantiNemo extended format for genotype files |
| read.fstat | Reads data from a FSTAT file |
| read.fstat.data | Reads data from a FSTAT file |
| samp.between | Shuffles a sequence among groups defined by the input vector |
| samp.between.within | Shuffles a sequence |
| samp.within | Shuffles a sequence within groups defined by the input vector |
| sexbias.test | Test for sex biased dispersal |
| sim.freq | Simulates frequencies, for internal use only |
| sim.genot | Simulates genotypes in an island model at equilibrium |
| sim.genot.t | Simulate data from a non-equilibrium island model |
| subsampind | Subsample a FSTAT data frame |
| test.between | Tests the significance of the effect of test.lev on genetic differentiation |
| test.between.within | Tests the significance of the effect of test.lev on genetic differentiation |
| test.g | Tests the significance of the effect of level on genetic differentiation |
| test.within | Tests the significance of the effect of inner.level on genetic differentiation within blocks defined by outer.level |
| varcomp | Estimates variance components for each allele of a locus |
| varcomp.glob | Estimate variance components and hierarchical F-statistics over all loci |
| vec2mat | Reads a vector into a matrix |
| wc | Computes Weir and Cockrham estimates of Fstatistics |
| write.bayescan | Writes a bayescan file |
| write.fstat | Write an Fstat data file |
| write.ped | Write ped file plink analysis |
| write.struct | Write structure file |
| yangex | Example data set from Yang (1998) appendix |