mcprofile (version 1.0-1)

hoa: Higher order asymptotics using the modified likelihood root

Description

Transforms a signed root deviance profile to a modified likelihood root profile.

Usage

hoa(object, maxstat = 10)

Arguments

object

An object of class mcprofile

maxstat

Limits the statistic to a maximum absolute value (default=10)

Value

An object of class mcprofile with a hoa profile in the srdp slot.

See Also

mcprofile

Examples

# NOT RUN {
#######################################
## cell transformation assay example ##
#######################################

str(cta)
## change class of cta$conc into factor
cta$concf <- factor(cta$conc, levels=unique(cta$conc))

ggplot(cta, aes(y=foci, x=concf)) + 
  geom_boxplot() +
  geom_dotplot(binaxis = "y", stackdir = "center", binwidth = 0.2) + 
  xlab("concentration")
  
  
# glm fit assuming a Poisson distribution for foci counts
# parameter estimation on the log link
# removing the intercept
fm <- glm(foci ~ concf-1, data=cta, family=poisson(link="log"))

### Comparing each dose to the control by Dunnett-type comparisons
# Constructing contrast matrix
library(multcomp)
CM <- contrMat(table(cta$concf), type="Dunnett")

# calculating signed root deviance profiles
(dmcp <- mcprofile(fm, CM))
# computing profiles for the modified likelihood root
hp <- hoa(dmcp)

plot(hp)

# comparing confidence intervals
confint(hp)
confint(dmcp)
# }