| average.fdr | Average a two-dimensional local false discovery rate |
| CDF | Compute FDR for general scenarios |
| CDF.paired | Compute FDR for general scenarios |
| CDFmix | Compute FDR for general scenarios |
| CDFmix.paired | Compute FDR for general scenarios |
| DrawContourlines | Draw and label a set of pre-calculated isolines |
| EOC | Estimated or empirical FDR, sensitivity, etc as a function of cutoff level |
| FDR | Compute FDR for general scenarios |
| FDR.paired | Compute FDR for general scenarios |
| fdr1d | Compute classical local false discovery rate |
| fdr2d | Compute two-dimensional local false discovery rate |
| FDRp | Estimated or empirical FDR, sensitivity, etc as a function of cutoff level |
| MAsim | Simulate two-sample microarray data |
| MAsim.real | Simulate two-sample microarray data |
| MAsim.smyth | Simulate two-sample microarray data |
| MAsim.var | Simulate two-sample microarray data |
| OCshow | Show one ore several OC curves graphically |
| p0 | Display functions for local fdr output |
| PermNull | Compute multiple parallel t-statistics |
| plot.FDR.result | Plot the empirical FDR as a function of the cutoff level |
| plot.fdr1d.result | Plot univariate local false discovery output |
| plot.fdr2d.result | Plotting the bivariate local false discovery results |
| samplesize | FDR as a function of sample size |
| smooth1d | Smoothing a vector of counts |
| summary.fdr.result | Display functions for local fdr output |
| tMixture | Fit a mixture of t-distributions |
| TOC | Theoretical FDR and sensitivity as a function of cutoff level |
| topDE | Display functions for local fdr output |
| Tornadoplot | Plotting the bivariate local false discovery results |
| tstatistics | Compute multiple parallel t-statistics |
| Volcanoplot | Plotting the bivariate local false discovery results |