This method is fuzzy generalized multifactor dimensionality reduction (FGMDR) method as an extension of GMDR method to detect gene-gene interactions associated with disease using fuzzy set theory. Details of Fuzzy MDR is explained in the following paper. More details of FGMDR will be updated as soon as published.
Jung, H.-Y., et al. (2016) A novel fuzzy set based multifactor dimensionality reduction method for detecting gene-gene interaction, Computational Biology and Chemistry.
#glm fitting for residual calculation with equation as class~covariates form fit_model <- glm(temp_data[,n]~temp_data[,n-1], data= temp_data, family = binomial(link = "logit")) #standard residuals for FGMDR temp_data$res<-residuals(fit_model, type="response") #data transformation, SNPs(9:24) and residuals(8) data_FGMDR <- temp_data[,c(9:24, 8)] #run FGMDR with 2-locus, 0.5 threshold and 10-fold cross validation res_2_2<-FGMDR(data_FGMDR, 2, 0.5, 10) #drawing result figure plot_FMDR(res_2,2)
The above R code be download from the below link.