Table 2.
Comparison of PathME vs SNF and iCluster in terms of silhouette index. For PathME we report the silhouette index of the consensus clustering as well as the best individual one among 500 randomly initialized sNMF runs
| Cancer datasets | PathME | SNF | iCluster | |||
|---|---|---|---|---|---|---|
| Disease | Omics type | Cophenetic correlation | Consensus silhouette | Optimal silhouette | Silhouette | Silhouette |
| CRC | Number of clusters | (5) | (2) | (2) | ||
| Multi-omics | 1 | 0.98 | 0.51 | 0.54 | 0.06 | |
| GBM | Number of clusters | (4) | (2) | (3) | ||
| Multi-omics | 1 | 1 | 0.67 | 0.58 | 0.11 | |
| LSCC | Number of clusters | (4) | (4) | (2) | ||
| Multi-omics | 1 | 1 | 0.82 | 0.71 | 0.35 | |
| BRCA | Number of clusters | (5) | (2) | (3) | ||
| Multi-omics | 1 | 0.93 | 0.67 | 0.57 | 0.12 | |