| Function | Description |
| closest.top | Find the 'top' closest gene |
| cor.dist | Pearson correlational distance |
| euc | Euclidean distance |
| KLdist.matrix | Discrete version of Kullback-Leibler Distance (KLD) |
| KLD.matrix | Continuous version of Kullback-Leibler Distance (KLD) |
| man | Manhattan distance |
| mutualInfo | Mutual Information |
| spearman.dist | Spearman correlational distance |
| tau.dist | Kendall's tau correlational distance |