https://github.com/cran/bbmle
Tip revision: 07cd713b4f52d0cde5dbb27602e2432d222df3a8 authored by Ben Bolker on 29 July 2012, 00:00:00 UTC
version 1.0.5.2
version 1.0.5.2
Tip revision: 07cd713
startvals.Rout.save
R Under development (unstable) (2012-07-27 r60013) -- "Unsuffered Consequences"
Copyright (C) 2012 The R Foundation for Statistical Computing
ISBN 3-900051-07-0
Platform: i686-pc-linux-gnu (32-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
Natural language support but running in an English locale
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> library(bbmle)
>
> ## copied from emdbook
> dbetabinom <- function (x, prob, size, theta, shape1, shape2, log = FALSE)
+ {
+ if (missing(prob) && !missing(shape1) && !missing(shape2)) {
+ prob = shape1/(shape1 + shape2)
+ theta = shape1 + shape2
+ }
+ v <- lchoose(size, x) - lbeta(theta * (1 - prob), theta *
+ prob) + lbeta(size - x + theta * (1 - prob), x + theta *
+ prob)
+ if (log)
+ v
+ else exp(v)
+ }
>
> ss <- data.frame(taken=c(0,1,2,5),available=c(5,5,5,5),
+ dist=rep(1,4))
>
> SP.bb=mle2(taken~dbetabinom(prob,theta,size=available),
+ start=list(prob=0.5,theta=1),data=ss)
Warning messages:
1: In lbeta(theta * (1 - prob), theta * prob) : NaNs produced
2: In lbeta(size - x + theta * (1 - prob), x + theta * prob) :
NaNs produced
> SP.bb.dist=mle2(taken~dbetabinom(prob,size=available,theta),
+ parameters=list(prob~dist-1,theta~dist-1),
+ start=as.list(coef(SP.bb)),data=ss)
>
> SP.bb.dist2=mle2(taken~dbetabinom(prob,size=available,theta),
+ parameters=list(prob~dist - 1,theta~dist - 1),
+ start=as.list(coef(SP.bb)),data=ss)
>
>
> proc.time()
user system elapsed
0.808 1.072 1.743