| GSAR-package | Gene Set Analysis in R |
| findMST2 | Union of the First and Second Minimum Spanning Trees |
| GSAR | Gene Set Analysis in R |
| GSNCAtest | Gene Sets Net Correlations Analysis |
| HDP.ranking | High Directed Preorder Ranking of MST |
| KStest | Multivariate Kolmogorov-Smirnov Test of Means |
| p53DataSet | p53 Dataset of the NCI-60 Cell Lines |
| plotMST2.pathway | Plot MST2 for a pathway in two conditions |
| RKStest | Multivariate Radial Kolmogorov-Smirnov Test of Variance |
| WWtest | Multivariate Generalization of the Wald-Wolfowitz Runs Test |