Cophenetic metrics for phylogenetic trees, after Sokal and Rohlf
Correlation between metrics over phylogenetic trees with 40 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 | 0.984903617588 | 0.727670065243 | 0.753646402508 | 0.146218767559 |
| Coph p=2 | | 1.0 | 0.774492196394 | 0.804310321179 | 0.159470244099 |
| Nsp p=1 | | | 1.0 | 0.985694392973 | 0.264252330305 |
| Nsp p=2 | | | | 1.0 | 0.237368594873 |
| 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 | 0.987565305611 | 0.781744222343 | 0.801135968443 | 0.439736653259 | 0.444340077831 | 0.00857475432663 |
| Coph p=2 | | 1.0 | 0.817312578341 | 0.840229763247 | 0.501014791042 | 0.506363895446 | 0.0035633083892 |
| Nsp p=1 | | | 1.0 | 0.987275326471 | 0.752623657063 | 0.754482101551 | 0.00878154445081 |
| Nsp p=2 | | | | 1.0 | 0.740443603355 | 0.745370596086 | 0.00425584955615 |
| Nunsp p=1 | | | | | 1.0 | 0.99637568741 | 0.00795757642333 |
| Nunsp p=2 | | | | | | 1.0 | 0.00822127009724 |
| 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 | | | | | |  |