GADGETS                 A function to run the GADGETS method
GxE.fitness.score       A function to assign an E-GADGETS (GxGxE)
                        fitness score to a chromosome
GxE.test                A function to run a test of interaction between
                        a collection of SNPs and exposures
                        (experimental).
case                    Genotypes for the affected children of
                        case-parent triads.
case.gxe                Genotypes for the cases of case-parent triads
                        with a simulated gene environment interaction.
case.mci                Genotypes for the affected cases of case-parent
                        triads with a simulated maternal-fetal
                        interaction.
chrom.fitness.score     A function to assign a fitness score to a
                        chromosome
combine.islands         A function to combine GADGETS results for
                        individual islands into a single dataset.
compute.graphical.scores
                        A function to compute SNP-pair scores for
                        network plots of results.
dad                     Genotypes for the fathers of case-parent
                        triads.
dad.gxe                 Genotypes for the fathers of case-parent triads
                        with a simulated gene environment interaction.
dad.mci                 Genotypes for the fathers of case-parent triads
                        with a simulated maternal-fetal interaction.
epistasis.test          A function to run a test of the null hypothesis
                        that a collection of SNPs do not exhibit
                        epistasis, conditional upon observed marginal
                        SNP-disease associations.
epistasisGA             'epistasisGA' package
exposure                Exposures for the cases of case-parent triads
                        with a simulated gene environment interaction.
global.test             A function to run a global test of the null
                        hypothesis that there are no SNP-disease
                        associations across a range of chromosome sizes
mom                     Genotypes for the mothers of case-parent
                        triads.
mom.gxe                 Genotypes for the mothers of case-parent triads
                        with a simulated gene environment interaction.
mom.mci                 Genotypes for the mothers of case-parent triads
                        with a simulated maternal-fetal interaction.
network.plot            A function to plot a network of SNPs with
                        potential multi-SNP effects.
permute.dataset         A function to create permuted datasets for
                        permutation based hypothesis testing.
preprocess.genetic.data
                        A function to pre-process case-parent triad or
                        disease-discordant sibling data.
run.gadgets             A function to run the GADGETS algorithm to
                        detect multi-SNP effects in case-parent triad
                        studies.
snp.annotations         RSID, REF, and ALT annotations for example
                        dataset SNPs
snp.annotations.mci     RSID, REF, and ALT annotations for example
                        dataset SNPs
