is.landscape            Test whether an object is a (fairly) legitimate
                        landscape
landscape.Fst           Calculates population structure statistic for
                        the entire landscape
landscape.advance       Code components to simulate a landscape
landscape.allelecount   Calculate allele numbers (frequency in the
                        statistical sense) at each locus in each
                        population
landscape.allelefreq    Calculate allele frequencies at each locus in
                        each population
landscape.amova         calcuates phi-st for every locus in the
                        landscape
landscape.amova.locus   uses functions in ade4 to calcuate phi-st for a
                        particular locus
landscape.amova.pairwise
                        calculates pairwise phi-ST for a landscape
landscape.clean         Function to resolve inconsistencies within a
                        landscape
landscape.coalinput     Add loci and individuals based upon output from
                        SimCoal 2.0
landscape.compress      Function to resolve inconsistencies within a
                        landscape, deprecated
landscape.democol       return largest demographic column from a
                        landscape
landscape.demography    Calculate demographic parameters
landscape.exp.het       Calculate expected heterozygosity
landscape.freq.locnames
                        Return a vector of locus IDs concatenated to
                        Allele ids
landscape.ind.freq      Return a matrix containing genotypes in
                        'frequency per individual' format
landscape.locus         return a matrix containing genotypes for a
                        particular locus
landscape.locus.states
                        return a matrix containing actual allelic
                        states and their indices
landscape.locusvec      return a vector with the locus ids for each
                        column in the individuals component of a
                        landscape
landscape.make.genind   Converts genetic marker data in a landscape
                        into a the genind format from adegenet
landscape.make.genpop   Converts genetic marker data in a landscape
                        into a the genpop format from adegenet
landscape.mig.matrix    Creates a Migration Matrix for All Life Stages
landscape.mismatchdist
                        Calculate a mismatch distribution for a locus
                        in a landscape
landscape.modify.epoch
                        Modifies one of the landscape's epochs
landscape.new.empty     Create a Skeletal Landscape
landscape.new.epoch     Create an Epoch
landscape.new.example   Create a Default Landscape
landscape.new.floatparam
                        Create a set of floating point parameters
landscape.new.individuals
                        Fill a landscape with individuals
landscape.new.intparam
                        Create a set of integer parameters
landscape.new.local.demo
                        Create a Local Demography
landscape.new.locus     Add a locus
landscape.new.switchparam
                        Create a set of boolean parameters
landscape.obs.het       Calculate observed heterozygosity
landscape.ploidy        return a vector with the ploidy of each locus
landscape.populations   return a vector of population IDs from a
                        landscape
landscape.sample        simulates sampling for genetics on the
                        landscape
landscape.setallelefreq
                        Set Allele frequencies in (a) specific stage(s)
landscape.setpopfreq    Set Allele frequencies in (a) specific
                        population(s)
landscape.simulate      Run a simulation for a single landscape through
                        time
landscape.states        return a matrix containing actual genotypes for
                        a particular locus
landscape.theta.h       Calculate theta using heterozygosity
landscape.theta.k       Calculate theta using the number of alleles
landscape.theta.s       Calculate theta using segregating sites
landscape.write.foreign
                        Save a landscape to a file in a foreign format
