BEAST v2.5.0 Documentation: beast.evolution.datatype.UserDataType

User defined datatype. Allows custom symbols to map onto statesets.

Inputs:

states, codelength, codeMap, characterName, value

 

states
type: java.lang.Integer
total number of states
Required input

 

codelength
type: java.lang.Integer
length of code, if negative a variable length code is assumed, default 1
Optional input. Default: 1

 

codeMap
type: java.lang.String
mapping of codes to states. A comma separated string of codes with a subset of states. A state set is a space separates list of zero based integers, up to the number of states, e.g. A=0, C=1, R=0 2, ? = 0 1 2 3
Required input

 

characterName
type: java.lang.String
the name of the character
Optional input

 

value
type: java.lang.String
the list of the state names ordered according to codes given, that is the first in the list is coded by 0, second, by 1 and so forth.
Optional input