Cophenetic metrics for phylogenetic trees, after Sokal and Rohlf
Correlation between metrics over phylogenetic trees with 3 leaves
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 | 1.0 | 1.0 | 1.0 | 1.0 |
Coph p=2 | | 1.0 | 1.0 | 1.0 | 1.0 |
Nsp p=1 | | | 1.0 | 1.0 | 1.0 |
Nsp p=2 | | | | 1.0 | 1.0 |
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 | ![](img/petit-nobin-3-coph1-coph2.png) | ![](img/petit-nobin-3-coph1-nods1.png) | ![](img/petit-nobin-3-coph1-nods2.png) | ![](img/petit-nobin-3-coph1-RF.png) |
Coph p=2 | | ![](img/petit-nobin-3-coph2-nods1.png) | ![](img/petit-nobin-3-coph2-nods2.png) | ![](img/petit-nobin-3-coph2-RF.png) |
Nsp p=1 | | | ![](img/petit-nobin-3-nods1-nods2.png) | ![](img/petit-nobin-3-nods1-RF.png) |
Nsp p=2 | | | | ![](img/petit-nobin-3-nods2-RF.png) |
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 | 1.0 | 1.0 | 1.0 | 1.0 | 1.0 | 1.0 |
Coph p=2 | | 1.0 | 1.0 | 1.0 | 1.0 | 1.0 | 1.0 |
Nsp p=1 | | | 1.0 | 1.0 | 1.0 | 1.0 | 1.0 |
Nsp p=2 | | | | 1.0 | 1.0 | 1.0 | 1.0 |
Nunsp p=1 | | | | | 1.0 | 1.0 | 1.0 |
Nunsp p=2 | | | | | | 1.0 | 1.0 |
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 | ![](img/petit-bin-3-coph1-coph2.png) | ![](img/petit-bin-3-coph1-nods1.png) | ![](img/petit-bin-3-coph1-nods2.png) | ![](img/petit-bin-3-coph1-nodu1.png) | ![](img/petit-bin-3-coph1-nodu2.png) | ![](img/petit-bin-3-coph1-RF.png) |
Coph p=2 | | ![](img/petit-bin-3-coph2-nods1.png) | ![](img/petit-bin-3-coph2-nods2.png) | ![](img/petit-bin-3-coph2-nodu1.png) | ![](img/petit-bin-3-coph2-nodu2.png) | ![](img/petit-bin-3-coph2-RF.png) |
Nsp p=1 | | | ![](img/petit-bin-3-nods1-nods2.png) | ![](img/petit-bin-3-nods1-nodu1.png) | ![](img/petit-bin-3-nods1-nodu2.png) | ![](img/petit-bin-3-nods1-RF.png) |
Nsp p=2 | | | | ![](img/petit-bin-3-nods2-nodu1.png) | ![](img/petit-bin-3-nods2-nodu2.png) | ![](img/petit-bin-3-nods2-RF.png) |
Nunsp p=1 | | | | | ![](img/petit-bin-3-nodu1-nodu2.png) | ![](img/petit-bin-3-nodu1-RF.png) |
Nunsp p=2 | | | | | | ![](img/petit-bin-3-nodu2-RF.png) |