R packages we have developed

 

TwoPhaseInd: an R package for estimating gene-treatment interactions and discovering predictive markers in randomized clinical trials.

The R package TwoPhaseInd implements a number of efficient statistical methods we developed for estimating subgroup treatment effects and gene–treatment interactions, exploiting the gene–treatment independence dictated by randomization, including the case-only estimator, the maximum estimated likelihood estimator and the semiparametric maximum likelihood estimator for parameters in a logistic model. For rare failure events subject to censoring, we have proposed efficient augmented case-only designs, a variation of the case–cohort design, to estimate genetic associations and subgroup treatment effects in a Cox regression model.

Citation:

Wang X, Dai JY. TwoPhaseInd: an R package for estimating gene-treatment interactions and discovering predictive markers in randomized clinical trials. Bioinformatics. 2016. In Press.

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