| agjack | Averaged generalized jackknife estimate of pi0 |
| CBUM | (Censored) Beta-Uniform mixture for p-values |
| clean.cdf | Saving, loading or removing pre-computed conditional cdf... |
| coef.ncpest | Extract estimated parameters |
| combn2R | Randomly Choosing R Combinations of Two Groups of n and n2... |
| cond.cdf | conditional cdf of p-values given noncentrality parameters |
| convest | Estimate Proportion of True Null Hypotheses |
| discTMix | Fit a discrete mixture of (noncentral) t-distributions |
| dncp | Density of noncentrality parameters |
| dt.int2 | INTerpolation of INTeger degrees of freedom noncentral... |
| dt.lap | Laplace approximation to the noncentral t-density |
| dtn.mix | Density of noncental t-normal mixture |
| extrp.pi0.master | Extrapolate the Estimates of P-value Density at 1 from... |
| fdr | False Discovery Rate (FDR) Estimation Based on a Given... |
| fitted.discTMix | Density evaluated at observed statistics for discTMix class |
| fitted.nparncp | Density evaluated at observed statistics for ncpest class |
| geomean | Geometric mean and harmonic mean functions |
| gjack | Generalized jackknife |
| grid.search | Performs a grid search to minimize the objective function |
| histf1 | Histogram estimator of p-value density evaluated at 1 |
| lastbin | Histogram estimator of p-value density evaluated at 1 |
| lfdr | Local False Discovery Rates (lfdr), i.e., Posterior... |
| loadOrInstall | Load packages or install and load packages |
| logLik.ncpest | log likelihood from an object of class ncpest |
| matrix.t.test | Apply a Two Sample T-test to Each Row or Column of a Matrix |
| mdt | Estimated arginal density of t-statistics |
| mTruncNorm | Moments of truncated normal distribution and the integral in... |
| ncpest | Estimation of the density of absolute noncentrality... |
| ncpest.iter | iterative call to the nparncpp function |
| nparncp | Nonparametric estimation of noncentrality parameters |
| parncp | Parametric estimation of noncentrality parameter distribution |
| pavaf1 | pooling adjacent violator algorithm estimate of p-value... |
| pdf.dist | Distance between densities |
| pi0-internal | internal functions not to be used by users directly |
| pi0-package | Estimating the proportion of true null hypotheses and False... |
| plot.extrpi0 | Plotting the Estimated Regression Surface |
| plot.nparncp | plot an object of class nparncpt, i.e., nonparametric... |
| plot.parncp | plot an object of class parncpt, i.e., parametric estiamte of... |
| plot.sparncp | plot an object of class sparncpt, i.e., semiparametric... |
| plot.subex | Plotting the P-value, Q-values, and the Regression Surface |
| plot.subt | 3D Scatter Plot of Subsample Sizes and P-value Density at... |
| print.extrpi0 | Print the Summary of the Extrapolation |
| print.subex | Printing a Summary of Subsampling-Extrapolation Results |
| print.subt | Print the Summary of the Subsampling T-tests |
| pt.sad | Saddle Point Approximation of noncentral t-distribution |
| reflection | Reflection and folding of a function about zero |
| sim.dat | Simulating a Microarray Data Set |
| simulatedDat | A Simulated Microarray Data Set |
| simulatedExtrpi0 | A Simulated 'extrpi0' Object |
| simulatedSubex | A Simulated 'subex' Object |
| simulatedSubt | A Simulated 'subt' Object |
| simulatedtstat | t-Statistics and p-Values from a Simulated Microarray Data... |
| sparncp | Semiparametric density estimation for noncentrality... |
| subex | Subsampling-Extrapolation Based Estimation of Proportion of... |
| subt | Subsampling a Microarray Data Set for Estimating Proportion... |
| summary.nparncp | Print summary for an object of class nparncp |
| summary.parncp | Print summary for an object of class parncp |
| summary.sparncp | Print summary for an object of class sparncp |
| varB | Variance of the reflected Bsplines |
| vcov.ncpest | extract inverse Hessian matrix from ncpest class |
| znormix | Normal-mixture based estimation of LFDR and pi0 |
