The following R functions are used for inference of trait associations with haplotypes and other covariates in generalized linear models. The functions are developed primarily for data collected in cohort or cross-sectional studies. They can accommodate uncertain haplotype phase and handle missing genotypes at some SNPs.
|Author||K. Burkett <email@example.com>, B. McNeney <firstname.lastname@example.org>, J. Graham <email@example.com>, with code for case-control data contributed by Zhijian Chen <firstname.lastname@example.org>|
|Date of publication||2015-05-11 00:22:30|
|Maintainer||K. Burkett <email@example.com>|
anova_hapassoc: Return likelihood ratio test of haplotype effect
hapassoc: EM algorithm to fit maximum likelihood estimates of trait...
hypoDat: Simulated data for a hypothetical binary trait
hypoDatGeno: Simulated data for a hypothetical genetic SNPs
logLik_hapassoc: Return log-likelihood
PreHap: Pre-process the data before fitting it with hapassoc
summaryHap: Summarize results of the hapassoc function