| Function | Description |
| exfdr | Example of twilight result. |
| expval | Example of twilight.pval result. |
| plot.twilight | A plot function for twilight objects. |
| twilight | Estimation of local false discovery rate. |
| twilight.combi | All permutations of a binary vector. |
| twilight.permute.pair | A permutation matrix of paired class labels. |
| twilight.permute.unpair | A permutation matrix of unpaired class labels. |
| twilight.pval | A function to compute p-values from expression sets. |