Module: BiSSE Net Diversification Likelihood (Calculator)
Full package name: mesquite.diverse.DivCategCharMLCalculator.DivCategCharMLCalculator Duty: (mesquite.diverse.DivCategCharMLCalculator.DivCategCharMLCalculator)
Module Explanation
Calculates likelihood with a tree of a species diversification model whose rates (r = spec. - ext.; a = spec./ext.) depend on the state of a binary character (BiSSE model, Maddison, Midford & Otto, 2007).
Author(s): Peter E. Midford & Wayne P. Maddison
Version 3.70
Commands of BiSSE Net Diversification Likelihood (Calculator)
setUnderflowCheckFreq
Explanation: Sets the frequency of checking for underflow
Parameters: [integer, 1 or greater]
suspend
Explanation: Suspends calculations
resume
Explanation: Resumes calculations
getLastResultString
Explanation: Returns last result string
setStepCount
Explanation: Sets the number of steps per branch
Parameters: [double, 1 or greater]
setIterations
Explanation: Sets the number of iterations in the likelihood optimization
Parameters: [integer, 1 or greater]
conditionOnSurvival
Explanation: Sets whether to condition by survival
Parameters: [on; off]
showParamExplorer
Explanation: Writes table to console
toggleIntermediatesToConsole
Explanation: Sets whether to write intermediate branch values to console
Parameters: [on; off]
getStartFromConstrainedModel
Explanation: Sets whether to start searches for six parameter models from estimates of canonical five parameter models (and 4 parameter from 3)
