https://github.com/cran/bbmle
Tip revision: a9e88f404068e23c6e0b8a1b2aa818082639db1a authored by Ben Bolker on 22 August 2013, 00:00:00 UTC
version 1.0.13
version 1.0.13
Tip revision: a9e88f4
optimizers.Rout.save
R Under development (unstable) (2013-08-18 r63609) -- "Unsuffered Consequences"
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> library(bbmle)
Loading required package: stats4
> old_opts <- options(digits=3)
> x <- 0:10
> y <- c(26, 17, 13, 12, 20, 5, 9, 8, 5, 4, 8)
> d <- data.frame(x,y)
> suppressWarnings(fits <- lapply(c("optim","nlm","nlminb"),
+ mle2,
+ minuslogl=y~dpois(lambda=ymax/(1+x/xhalf)),
+ start=list(ymax=15,xhalf=6),data=d,
+ method="Nelder-Mead")) ## 'method' is ignored by nlm()/nlminb()
>
> sapply(fits,coef)
[,1] [,2] [,3]
ymax 25.00 25.00 25.00
xhalf 3.06 3.06 3.06
> sapply(fits,logLik)
[1] -28.6 -28.6 -28.6
>
> (fit2 <- mle2(y~dpois(lambda=25/(1+x/xhalf)),
+ start=list(xhalf=5),data=d,
+ lower=2,upper=8,
+ optimizer="optimize"))
Call:
mle2(minuslogl = y ~ dpois(lambda = 25/(1 + x/xhalf)), start = list(xhalf = 5),
optimizer = "optimize", data = d, lower = 2, upper = 8)
Coefficients:
xhalf
3.06
Log-likelihood: -28.6
>
> ## gives error referring to 'interval' rather than 'upper'/'lower'
> ## (fit2 <- mle2(y~dpois(lambda=25/(1+x/xhalf)),
> ## start=list(xhalf=5),
> ## optimizer="optimize"))
> options(old_opts)
>
> proc.time()
user system elapsed
0.536 0.848 2.784