confint and adjust in R [General Statistics]
adjust=is an argument only available with package lsmeans (or another package overriding the behavior of
confint()for other classes then "lm".
❝ 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 [/code]
❝ 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.
Correct concerning four different results.
adjust="eat.my.shorts"is outstanding because this "method" isn't implemented but transferred via "..." and thus doesn't underlay any error checks. To react on this undesirable feature the programmer decided to set
adjust=in such cases to
adjust="bonferroni". Reasonable. Or?
This behavior is described in the man page of lsmeans/pairs or summary.emmGrid.
adjust=is part of package lsmeans. Reason:
This results in calling
confint.emmGrid()with the possibility of reacting on multiplicity adjusted CI's instead of
confint.lm()without the possibilty of multiplicity adjustments if you call