PhenotypicModel-class function

Class "PhenotypicModel"

This class describes a model of phenotypic evolution running on a phylogenetic tree, with or without interactions between lineages. 1.1

class

Objects from the Class

Objects can be created by calls of the form new("PhenotypicModel", ...). Alternatively, you may just want to use the "createModel" function for predefined models.

Slots

• name:: Object of class "character" ~~
• period:: Object of class "numeric" ~~
• aAGamma:: Object of class "function" ~~
• numbersCopy:: Object of class "numeric" ~~
• numbersPaste:: Object of class "numeric" ~~
• initialCondition:: Object of class "function" ~~
• paramsNames:: Object of class "character" ~~
• constraints:: Object of class "function" ~~
• params0:: Object of class "numeric" ~~
• tipLabels:: Object of class "character" ~~
• tipLabelsSimu:: Object of class "character" ~~
• comment:: Object of class "character" ~~

Methods

• [<-: signature(x = "PhenotypicModel", i = "ANY", j = "ANY", value = "ANY"): ...
• [: signature(x = "PhenotypicModel", i = "ANY", j = "ANY", drop = "ANY"): ...
• fitTipData: signature(object = "PhenotypicModel"): ...
• getDataLikelihood: signature(object = "PhenotypicModel"): ...
• getTipDistribution: signature(object = "PhenotypicModel"): ...
• modelSelection: signature(object = "PhenotypicModel"): ...
• print: signature(x = "PhenotypicModel"): ...
• show: signature(object = "PhenotypicModel"): ...
• simulateTipData: signature(object = "PhenotypicModel"): ...

References

Manceau M., Lambert A., Morlon H. (2017) A unifying comparative phylogenetic framework including traits coevolving across interacting lineages Systematic Biology, and the associated Supplementary material.

Author(s)

Marc Manceau

Examples

showClass("PhenotypicModel")