Robust Gene-Environment Interaction Analysis

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Documentation for package ‘GEInter’ version 0.3.2

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AR The covariance matrix with an autoregressive (AR) structure among variables
Augmented.data Accommodating missingness in environmental measurements in gene-environment interaction analysis
bic.BLMCP BIC for BLMCP
bic.PTReg BIC for PTReg
BLMCP Accommodating missingness in environmental measurements in gene-environment interaction analysis: penalized estimation and selection
coef.bic.BLMCP Extract coefficients from a "bic.BLMCP" object
coef.bic.PTReg Extract coefficients from a "bic.PTReg" object
coef.BLMCP Extract coefficients from a "BLMCP" object
coef.PTReg Extract coefficients from a "PTReg" object
coef.RobSBoosting Extract coefficients from a "RobSBoosting" object
HNSCC A data frame containing the TCGA head and neck squamous cell carcinoma (HNSCC) data.
Miss.boosting Robust gene-environment interaction analysis approach via sparse boosting, where the missingness in environmental measurements is effectively accommodated using multiple imputation approach
plot.bic.BLMCP Plot coefficients from a "bic.BLMCP" object
plot.bic.PTReg Plot coefficients from a "bic.PTReg" object
plot.BLMCP Plot coefficients from a "BLMCP" object
plot.Miss.boosting Plot coefficients from a "Miss.boosting" object
plot.PTReg Plot coefficients from a "PTReg" object
plot.RobSBoosting Plot coefficients from a "RobSBoosting" object
predict.bic.BLMCP Make predictions from a "bic.BLMCP" object.
predict.bic.PTReg Make predictions from a "bic.PTReg" object
predict.BLMCP Make predictions from a "BLMCP" object
predict.Miss.boosting Make predictions from a "Miss.boosting" object
predict.PTReg Make predictions from a "PTReg" object
predict.RobSBoosting Make predictions from a "RobSBoosting" object
PTReg Robust gene-environment interaction analysis using penalized trimmed regression
QPCorr.matrix Robust identification of gene-environment interactions using a quantile partial correlation approach
QPCorr.pval P-values of the "QPCorr.matrix" obtained using a permutation approach
RobSBoosting Robust semiparametric gene-environment interaction analysis using sparse boosting
Rob_data A matrix containing the simulated data for 'RobSBoosting' and 'Miss.boosting' methods
simulated_data Simulated data for generating response