+.locus                 Overload '+' operator for pairs of 'locus'
                        objects
-.locus                 Overload '-' operator for pairs of 'locus'
                        objects
A                       Allelic Diversity
Ae                      Effective Allelic Diversity
Dest                    Estimation Joost's Dest parameter
Fis                     Estimate simple inbreeding from frequencies
Gst                     Estimation Nei's Gst parameter
Gst_prime               Estimation Nei's Gst parameter with Hedrick's
                        correction for allelic diversity
He                      Estimate expected heterozygosity
Ho                      Estimate observed heterozygosity
Pe                      Polymorphic index for loci
[.locus                 Overload '[' for vectors of 'locus' objects
alleles                 Returns the alleles in a 'locus' object
arapat                  Data for Araptus attenuatus
as.data.frame.locus     Converts locus to a data frame
as.list.locus           Converts locus to a list
as.locus                As operator for locus
bad_parents             Determines of the indicated parent can possibly
                        be the parent of the offspring
c.locus                 Concatinate 'locus' objects
column_class            Find columns of data in a data.frame for a type
                        of class
cornus_florida          Cornus mom/offspring data set
data_2_column           Two Column Example Data
data_aflp               AFLP example data set
data_separated          Separated Example Data
data_snp                SNP Example Data
data_zymelike           Zyme-like Example Data
dist_amova              Estimation of amova distance
dist_bray               Estimation of jaccard distance
dist_cavalli            Estimation of Bray-Curtis distance
dist_cgd                Estimation of conditional genetic distance
dist_euclidean          Estimation of euclidean distance
dist_jaccard            Estimation of jaccard distance
dist_nei                Estimation of Bray-Curtis distance
dist_ss                 Estimation of SS distance
exclusion_probability   Paternity exclusion probability
frequencies             Get allele frequencies
genetic_distance        Estimate genetic distances among strata in a ,
genetic_diversity       Estimate genetic diversity among strata in a
                        Population,
genetic_relatedness     Estimates pair-wise relatedness
genetic_structure       Estimation of , genetic structure statistics.
genotype_frequencies    Genotype Frequencies
geom_frequencies        Plot allele frequencies
geom_locus              Translate a vector of 'locus' objects into a
                        'gemo_bars' layer
geom_strata             Returns ggplot layer for population data
geom_surface            Translate raster into ggplot object
grid.csv                CDPop Data
gstudio-package         Routines used in spatial analysis of genetic
                        marker data
indices                 Returns quickly indices for a matrix of size N
is.locus                An 'is-a' operator for 'locus'
is.na.locus             Determines if 'locus' is NA
is_frequency            Is-A function for Allele Frequences
is_heterozygote         Determine heterozygosity
kronecker_delta         This function returns the kronecker operator
                        for two loci.
locus                   General constructor for locus object
make_population         Makes a random population
mate                    Produces offspring
migrate                 This function returns a data frame that has
                        moved migrants
minus_mom               Subtracts maternal component to offspring
                        genotypes
multilocus_diversity    Returns multilocus diversity
optimal_sampling        Estimate optimal sampling allocation
parent_finder           This function finds a set of potential parents
                        from an offspring.
partition               Subdivide , into a list of substrata
paternity               Estimates fractional paternity probability
permute_ci              Permute for confidence interval
pies_on_map             Plot overload
ploidy                  Returns the number of alleles in a 'locus'
                        object
plot.data.frame         Plotting the locations of a 'population'
plot.locus              Overload plot function
population_map          Retrieve a map for a set of populations.
print.locus             Overload of 'print' function for 'locus'
                        objects
rarefaction             Does allelic diversity rarefaction
read_population         Read a raw text file in and translate
                        appropriate columns into genotypes
rel_lynch               This estimates the Lynch & Ritland (1999)
rel_nason               This estimates the Fij statistic from Nason
                        allele-wise or for a whole locus
rel_queller             This estimates the Queller & Goodnight (1989)
rel_ritland             This estimates the relatedness statistic from
                        Ritland (1996)
rep.locus               Replicate a locus
snp_prob.csv            SNP probability data
spiderplot_data         Translate paternity output into segments for
                        geom_segments
strata_coordinates      Grab coordinates for strata
strata_distance         Return distances between strats
summary.locus           Provides a summary of the 'locus' object
to_fixed_locus          returns string representation of locus for
                        output like genepop/heirfstat
to_genepop              Translates a 'data.frame'
to_mv                   Returns the passed itmes as multivariate data
to_mv_freq              Returns mv frequencies for stratum in long
                        format
to_structure            Translates a 'data.frame' with loci into a
                        textual STRUCTURE file.
transition_probability
                        Returns transition probability for offspring
                        given one or more parents.
write_population        Writes data frame with genotypes and other data
                        to a file
