Population Genetics


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==.genotype Genotype or Haplotype Objects.
==.haplotype Genotype or Haplotype Objects.
allele Extract Features of Genotype objects
allele.count.2.genotype Undocumented functions
allele.count.genotype Genotype or Haplotype Objects.
allele.names Extract Features of Genotype objects
as.character.gene Create and Manipulate Locus, Gene, and Marker Objects
as.character.locus Create and Manipulate Locus, Gene, and Marker Objects
as.character.marker Create and Manipulate Locus, Gene, and Marker Objects
as.factor Undocumented functions
as.factor.allele.genotype Undocumented functions
as.factor.default Undocumented functions
as.factor.genotype Undocumented functions
as.genotype Genotype or Haplotype Objects.
as.genotype.allele.count Genotype or Haplotype Objects.
as.genotype.character Genotype or Haplotype Objects.
as.genotype.default Genotype or Haplotype Objects.
as.genotype.factor Genotype or Haplotype Objects.
as.genotype.genotype Genotype or Haplotype Objects.
as.genotype.haplotype Genotype or Haplotype Objects.
as.genotype.table Genotype or Haplotype Objects.
as.haplotype Genotype or Haplotype Objects.
binsearch Binary Search
carrier Extract Features of Genotype objects
ci.balance Experimental Function to Correct Confidence Intervals At or Near Boundaries of the Parameter Space by 'Sliding' the Interval on the Quantile Scale.
diseq Estimate or Compute Confidence Interval for the Single-Marker Disequilibrium
gene Create and Manipulate Locus, Gene, and Marker Objects
geno.as.array Undocumented functions
genotype Genotype or Haplotype Objects.
getgene Create and Manipulate Locus, Gene, and Marker Objects
getlocus Create and Manipulate Locus, Gene, and Marker Objects
getmarker Create and Manipulate Locus, Gene, and Marker Objects
gregorius Probability of Observing All Alleles with a Given Frequency in a Sample of a Specified Size.
hap Undocumented functions
hapambig Undocumented functions
hapenum Undocumented functions
hapfreq Undocumented functions
haplotype Genotype or Haplotype Objects.
hapmcmc Undocumented functions
hapshuffle Undocumented functions
heterozygote Extract Features of Genotype objects
heterozygote.genotype Genotype or Haplotype Objects.
homozygote Extract Features of Genotype objects
homozygote.genotype Genotype or Haplotype Objects.
HWE.chisq Perform Chi-Square Test for Hardy-Weinberg Equilibrium
HWE.exact Exact Test of Hardy-Weinberg Equilibrium for 2-Allele Markers
HWE.test Estimate Disequilibrium and Test for Hardy-Weinberg Equilibrium
is.gene Create and Manipulate Locus, Gene, and Marker Objects
is.genotype Genotype or Haplotype Objects.
is.haplotype Genotype or Haplotype Objects.
is.locus Create and Manipulate Locus, Gene, and Marker Objects
is.marker Create and Manipulate Locus, Gene, and Marker Objects
LD Pairwise linkage disequilibrium between genetic markers.
LDplot Textual and graphical display of linkage disequilibrium (LD) objects
LDtable Textual and graphical display of linkage disequilibrium (LD) objects
library.pos Loading and Listing of Packages (backported from 1.8.0)
locus Create and Manipulate Locus, Gene, and Marker Objects
makeGenotypes Convert columns in a dataframe to genotypes or haplotypes
makeHaplotypes Convert columns in a dataframe to genotypes or haplotypes
marker Create and Manipulate Locus, Gene, and Marker Objects
mknum Undocumented functions
mourant Undocumented functions
nallele Genotype or Haplotype Objects.
plot.LD.data.frame Textual and graphical display of linkage disequilibrium (LD) objects
print.allele.count Genotype or Haplotype Objects.
print.allele.genotype Genotype or Haplotype Objects.
print.diseq Estimate or Compute Confidence Interval for the Single-Marker Disequilibrium
print.gene Create and Manipulate Locus, Gene, and Marker Objects
print.genotype Genotype or Haplotype Objects.
print.HWE.test Estimate Disequilibrium and Test for Hardy-Weinberg Equilibrium
print.LD Textual and graphical display of linkage disequilibrium (LD) objects
print.locus Create and Manipulate Locus, Gene, and Marker Objects
print.marker Create and Manipulate Locus, Gene, and Marker Objects
print.summary.genotype Allele and Genotype Frequency from a Genotype or Haplotype Object
print.summary.LD.data.frame Textual and graphical display of linkage disequilibrium (LD) objects
shortsummary.genotype Undocumented functions
summary.genotype Allele and Genotype Frequency from a Genotype or Haplotype Object
summary.LD.data.frame Textual and graphical display of linkage disequilibrium (LD) objects
write.marker.file Create genetics data files
write.pedigree.file Create genetics data files
write.pop.file Create genetics data files
[.genotype Genotype or Haplotype Objects.
[.haplotype Genotype or Haplotype Objects.