| MPSEM-package | Modeling Phylogenetic Signals using Eigenvector Maps |
| add.edge | Graph Manipulation Functions |
| add.vertex | Graph Manipulation Functions |
| as.data.frame.PEM | Class and Methods for Phylogenetic Eigenvector Maps (PEM) |
| collapse.vertex | Graph Manipulation Functions |
| EvolveOptimMarkovTree | Simulates the Evolution of a Quantitative Trait. |
| getAncGraphLocations | Phylogenetic Eigenvector Maps |
| getGraphLocations | Phylogenetic Eigenvector Maps |
| graph-class | Class and Method for Directed Graphs |
| graph-functions | Graph Manipulation Functions |
| lm-utils | Linear Modelling Utility Functions |
| lmforwardsequentialAICc | Linear Modelling Utility Functions |
| lmforwardsequentialsidak | Linear Modelling Utility Functions |
| Locations2PEMscores | Phylogenetic Eigenvector Maps |
| OUvar | Simulates the Evolution of a Quantitative Trait. |
| PEM-class | Class and Methods for Phylogenetic Eigenvector Maps (PEM) |
| PEM-functions | Phylogenetic Eigenvector Maps |
| PEM.build | Phylogenetic Eigenvector Maps |
| PEM.fitSimple | Phylogenetic Eigenvector Maps |
| PEM.forcedSimple | Phylogenetic Eigenvector Maps |
| PEM.updater | Phylogenetic Eigenvector Maps |
| PEMInfluence | Phylogenetic Eigenvector Maps |
| PEMvar | Simulates the Evolution of a Quantitative Trait. |
| PEMweights | Phylogenetic Eigenvector Maps |
| Phylo2DirectedGraph | Graph Manipulation Functions |
| pop.graph | Graph Manipulation Functions |
| predict.PEM | Class and Methods for Phylogenetic Eigenvector Maps (PEM) |
| print.graph | Class and Method for Directed Graphs |
| print.PEM | Class and Methods for Phylogenetic Eigenvector Maps (PEM) |
| rm.edge | Graph Manipulation Functions |
| rm.vertex | Graph Manipulation Functions |
| trait-simulator | Simulates the Evolution of a Quantitative Trait. |
| TraitOUsimTree | Simulates the Evolution of a Quantitative Trait. |
| TraitVarGraphSim | Simulates the Evolution of a Quantitative Trait. |