Cophenetic metrics for phylogenetic trees, after Sokal and Rohlf
Correlation between metrics over phylogenetic trees with 50 leaves (Simulation)
Non-necessary binary phylogenetic trees
Spearman's correlation between cophenetic, nodal and RF metrics.
| | Cophenetic p=1 | Cophenetic p=2 | Nodalsp p=1 | Nodalsp p=2 | RF |
| Coph p=1 | 1.0 | 0.985895695361 | 0.73398237295 | 0.758690787541 | 0.10914640045 |
| Coph p=2 | | 1.0 | 0.781569947304 | 0.808257134289 | 0.120857746783 |
| Nsp p=1 | | | 1.0 | 0.987917121604 | 0.193064036416 |
| Nsp p=2 | | | | 1.0 | 0.165939188257 |
| RF | | | | | 1.0 |
2D histograms. A darker squeare means that there are more trees with that relationship.
| | Cophenetic p=2 | Nodalsp p=1 | Nodalsp p=2 | RF |
| Coph p=1 |  |  |  |  |
| Coph p=2 | |  |  |  |
| Nsp p=1 | | |  |  |
| Nsp p=2 | | | |  |
Binary phylogenetic trees
Spearman's correlation between cophenetic, nodal and RF metrics.
| | Cophenetic p=1 | Cophenetic p=2 | Nodalsp p=1 | Nodalsp p=2 | Nodalunsp p=1 | Nodalunsp p=2 | RF |
| Coph p=1 | 1.0 | 0.987778653327 | 0.751336147125 | 0.775269497621 | 0.408106188407 | 0.411489754114 | 0.00791743025832 |
| Coph p=2 | | 1.0 | 0.795503844355 | 0.822069715663 | 0.474227824899 | 0.478137082181 | 0.00941974595498 |
| Nsp p=1 | | | 1.0 | 0.987308239742 | 0.764134055178 | 0.765151768249 | 0.0278692344664 |
| Nsp p=2 | | | | 1.0 | 0.741383698517 | 0.745470918456 | 0.0187369855508 |
| Nunsp p=1 | | | | | 1.0 | 0.997032783354 | 0.0393577970808 |
| Nunsp p=2 | | | | | | 1.0 | 0.0366733103642 |
| RF | | | | | | | 1.0 |
2D histograms. A darker squeare means that there are more trees with that relationship.
| | Cophenetic p=2 | Nodalsp p=1 | Nodalsp p=2 | Nodalunsp p=1 | Nodalunsp p=2 | RF |
| Coph p=1 |  |  |  |  |  |  |
| Coph p=2 | |  |  |  |  |  |
| Nsp p=1 | | |  |  |  |  |
| Nsp p=2 | | | |  |  |  |
| Nunsp p=1 | | | | |  |  |
| Nunsp p=2 | | | | | |  |