# Robust Gene-Environment Interaction Analysis

## Documentation for package ‘GEInter’ version 0.3.0

- DESCRIPTION file.

## Help Pages

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