CBUM                    (Censored) Beta-Uniform mixture for p-values
agjack.pi0              Averaged generalized jackknife estimate of pi0
clean.cdf               Saving, loading or removing pre-computed
                        conditional cdf objects from memory or disk
coef.ncpest             Extract estimated parameters
combn2R                 Randomly Choosing R Combinations of Two Groups
                        of n and n2 Elements Taken m and m2 at a Time
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 t-density
dt.lap                  Laplace approximation to the noncentral
                        t-density
dtn.mix                 Density of noncental t-normal mixture
extrp.pi0               Extrapolate the Estimates of P-value Density at
                        1 from Subsamples to Estimate the Proportion of
                        True Nulls
fdr                     False Discovery Rate (FDR) Estimation Based on
                        a Given Estimate of Pi0
fitted.discTMix         Density evaluated at observed statistics for
                        discTMix class
fitted.nparncpt         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 Probability of Equivalent Expression
                        (ppee) for gene expression profiling data.
loadOrInstall           Load packages or install and load packages
logLik.ncpest           log likelihood from an object of class ncpest
mTruncNorm              Moments of truncated normal distribution and
                        the integral in the noncentral t-distribution
marginal.dt             Estimated arginal density of t-statistics
matrix.t.test           Apply a Two Sample T-test to Each Row or Column
                        of a Matrix
nparncpp                Estimation of the density of absolute
                        noncentrality parameters
nparncpp.iter           iterative call to the nparncpp function
nparncpt                Nonparametric estimation of noncentrality
                        parameters
parncpt                 Parametric estimation of noncentrality
                        parameter distribution
pavaf1                  pooling adjacent violator algorithm estimate of
                        p-value density at 1
pdf.dist                Distance between densities
pi0-package             Estimating the proportion of true null
                        hypotheses and False Discovery Rates
plot.extrpi0            Plotting the Estimated Regression Surface
plot.nparncpt           plot an object of class nparncpt, i.e.,
                        nonparametric estiamte of noncentrality
                        parameters
plot.parncpt            plot an object of class parncpt, i.e.,
                        parametric estiamte of noncentrality parameters
plot.sparncpt           plot an object of class sparncpt, i.e.,
                        semiparametric estimate of noncentrality
                        parameters
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 One.
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
reflect                 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 Set
sparncpt                Semiparametric density estimation for
                        noncentrality parameters
subex                   Subsampling-Extrapolation Based Estimation of
                        Proportion of True Null Hypotheses and False
                        Discovery Rates for Microarray Data
subt                    Subsampling a Microarray Data Set for
                        Estimating Proportion of True Null Hypotheses
summary.nparncpt        Print summary for an object of class nparncp
summary.parncpt         Print summary for an object of class parncp
summary.sparncpt        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
