confint and adjust in R [General Sta­tis­tics]

posted by ElMaestro  – Denmark, 2019-01-07 17:12 (858 d 20:40 ago) – Posting: # 19754
Views: 3,028

Dear d_labes,

» What you describe must be an effect of using an add-on package with comes with the possibility to consider multiplicity in calculation of confidence intervals.

Thanks a lot for commenting :-)

Can you try this:

library("lsmeans")
set.seed(12341)
v1=c(rep("A",10),rep( "B",10), rep( "C", 10))
v2=c(rep("Q",10),rep( "W",10), rep( "E",10))
Foo=sample(v1)
Bar=sample(v2)
y=runif(30)
M=lm(y~factor(Foo)+factor(Bar))

confint(pairs(lsmeans(M, "Foo")), adjust="none")
confint(pairs(lsmeans(M, "Foo")), adjust="bonferroni")
confint(pairs(lsmeans(M, "Foo")), adjust="eat.my.shorts")
confint(pairs(lsmeans(M, "Foo")))
# HAPPY NEW YEAR


It gives four different results here. You can see adjust is passed as an argument to the confint function so can't see how it would be part of lsmeans or pairs args.

Pass or fail!
ElMaestro

Complete thread:

Activity
 Admin contact
21,462 posts in 4,487 threads, 1,514 registered users;
online 8 (0 registered, 8 guests [including 6 identified bots]).
Forum time: Saturday 13:53 UTC (Europe/Vienna)

By all means let’s be open-minded, but not so open-minded
that our brains drop out.    Richard Dawkins

The Bioequivalence and Bioavailability Forum is hosted by
BEBAC Ing. Helmut Schütz
HTML5