diversitree: make.prior – R documentation

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make.prior

Simple Prior Functions

Functions for generating prior functions for use with mcmc, etc.

make.prior.exponential(r)
make.prior.uniform(lower, upper, log=TRUE)

`r`	Scalar or vector of rate parameters
`lower`	Lower bound of the parameter
`upper`	Upper bound of the parameter
`log`	Logical: should the prior be on a log basis?

The exponential prior probability distribution has probability density

sum(r[i]*exp(-r[i]*x[i]))

where the i denotes the ith parameter. If r is a scalar, then the same rate is used for all parameters.

These functions each return a function that may be used as the prior argument to mcmc().

Richard G. FitzJohn

Comparative 'Phylogenetic' Analyses of Diversification

v0.9-15

GPL (>= 2)

Authors

Richard G. FitzJohn [aut, cre], Emma Goldberg [aut], Karen Magnuson-Ford [aut], Roger Sidje [aut]

Initial release