GGfitter-class          Class "GGfitter" wrapper for special functions
                        to do whole genome screens
HM2rac                  compute rare allele count from a hapmap file
HMworkflow              function to bind together HapMap genotyping
                        results and expression data
Strains2rac             convert a Wellcome 'Strains' genotyping file to
                        rare allele count form
geneLocs                gene metadata from NCBI
genoStrings             create a character vector of genotype value
                        strings
gwSnpScreen-methods     genome-wide test for association between SNP
                        and phenotype
gwSnpScreenResult-class
                        Class "gwSnpScreenResult" -- containers for
                        genome-wide and chromosome-wide snp screen
                        statistics
make_racExSet           create a racExSet from simpler constituents
oGtypeExSet-class       Class "oGtypeExSet" ~~~
plot_EvG-methods        plot expression vs. genotype
racExSet-class          Class "racExSet" for combining RareAlleleCount
                        representations of SNPs, gene expression data,
                        and other phenotype data
smlSet-class            Class "smlSet" -- efficient representation of
                        SNP+expression data, based on Clayton snpMatrix
                        package
snpLocNCref-class       Class "snpLocNCref" container for netCDF
                        reference to snp location data
snpMeta-class           Class "snpMeta" -- HapMap (or Wellcome INBREDS)
                        -based metadata structures for SNPs
snpScreen               compute model fits over a sequence of SNPs
snps                    accessor for genotype data in a ggExprSet
topSnps-methods         report on the smallest p-values for
                        SNP-expression associations
