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... |
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 |
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