gstudio-package | Spatial analysis of genetic marker data |
$ | Set names of data columns in the 'Population' |
$-method | Set names of data columns in the 'Population' |
$<- | Set names of data columns in the 'Population' |
$<--method | Set names of data columns in the 'Population' |
allele.frequencies | Returns a 'Frequencies' object (or objects) |
allele.frequencies-method | Returns a 'Frequencies' object (or objects) |
append | Set names of data columns in the 'Population' |
araptus_attenuatus | An example data set for co-dominant loci |
as.character | Overload of 'as.character' function |
as.character-method | Overload of 'as.character' function |
as.vector | Overload of 'as.vector' |
as.vector-method | Overload of 'as.vector' |
column.class | Returns the indices of the data columns that are of type requested |
column.class-method | Returns the indices of the data columns that are of type requested |
column.names | Returns data names for specific kind of class |
column.names-method | Returns data names for specific kind of class |
congruence.graph | Create a congruence graph from populations |
congruence.probability | Probability for congruence graph |
cornus_florida | An example data set for parent offspring data |
dim | Dimensions of the 'Population' |
dim-method | Dimensions of the 'Population' |
exclusion.probability | Estimates the exclusion probability from a Frequencies object |
Frequencies | Constructor function for 'Frequencies' objects |
Frequencies-class | Class 'Frequencies' |
genetic.distance | Main function for estimating genetic distances |
genetic.diversity | Estimates rarefied genetic diversity |
genetic.structure | Main function for estimating genetic structure parameters |
genotype.counts | Returns tally of genotypes |
genotype.counts-method | Returns tally of genotypes |
get.frequencies | Gets allele frequencies from pop |
get.frequencies-method | Gets allele frequencies from pop |
google.pie.chart | Get Google Pie Chart URL |
great.circle.distance | Get the "great circle" distance (in km) between two points |
he | Gets expected heterozygosity |
he-method | Gets expected heterozygosity |
ho | Gets observed heterozygosity |
ho-method | Gets observed heterozygosity |
indices | Returns the numeric indices of data column names |
indices-method | Returns the numeric indices of data column names |
is.heterozygote | Is a locus a heterozygote |
is.heterozygote-method | Is a locus a heterozygote |
is.na | Overload of 'is.na' |
is.na-method | Overload of 'is.na' |
length | Overload of 'length' |
length-method | Overload of 'length' |
Locus | Constructor function for 'Locus' objects |
Locus-class | Class 'Locus' |
minus.mom | Removes the materinal contribution to offspring |
multivariate.loci | Returns multivariate genotypes for all loci |
multivariate.loci-method | Returns multivariate genotypes for all loci |
names | Data column names in 'Population' a locus object |
names-method | Data column names in 'Population' a locus object |
names<- | Set names of data columns in the 'Population' |
names<--method | Set names of data columns in the 'Population' |
offspring.array | Grabs mothers and offspring from a larger data set |
partition | Returns a list of 'Population' objects |
partition-method | Returns a list of 'Population' objects |
paternity | Performs paternity exclusion using Fractional analysis |
paternity.spiderplot | Creates a graphical depiction of paternity |
pies.on.map | Creates google map with pie charts for allele frequencies. |
plot.genetic.diversity | Plots out results of genetic diversity |
plot.genetic.structure | Plots out results of genetic structure |
popgraph.on.map | Creates google map with pie charts for allele frequencies. |
Population | Constructor function for 'Population' objects |
Population-class | Class 'Population' |
population.graph | Create a Population Graph from a data set |
Printing a locus object | |
print-method | Printing a locus object |
print.genetic.diversity | Prints out results of genetic diversity |
print.genetic.structure | Prints out results of genetic structure |
print.paternity | Print paternity object |
print.summary.gstudio | Printing of a summary.Locus object |
read.pgraph | Loads a population graph file *.pgraph |
read.population | Loads a population from a *.csv file |
row.names | Overload row.names function for 'Population' |
row.names-method | Overload row.names function for 'Population' |
show | Showing a locus object |
show-method | Showing a locus object |
stratum.distance | Calucluate pair-wise distance between stratum |
summary | Overload of 'summary' |
summary-method | Overload of 'summary' |
transition.probability | Transition Probabilty for offspring given parents. |
validate_gstudio_tests | Verify test conditions for package components |
[-Locus-method | Accessing elements within a locus object |
[-method | Accessing elements within a locus object |
[-method | Set names of data columns in the 'Population' |
[-Population-accessors | Set names of data columns in the 'Population' |
[<--Locus-method | Accessing elements within a locus object |
[<--method | Accessing elements within a locus object |
[<--method | Set names of data columns in the 'Population' |
[<--Population-accessors | Set names of data columns in the 'Population' |
[[-method | Set names of data columns in the 'Population' |
[[-Population-accessors | Set names of data columns in the 'Population' |