| 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. |
| GADGETS | A function to run the GADGETS method |
| 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 |
| 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). |
| 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 |