1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
|
#' Fortify methods for objects produced by \pkg{multcomp}
#'
#' @param model an object of class `glht`, `confint.glht`,
#' `summary.glht` or [multcomp::cld()]
#' @param data,... other arguments to the generic ignored in this method.
#' @name fortify-multcomp
#' @keywords internal
#' @examples
#' if (require("multcomp")) {
#' amod <- aov(breaks ~ wool + tension, data = warpbreaks)
#' wht <- glht(amod, linfct = mcp(tension = "Tukey"))
#'
#' fortify(wht)
#' ggplot(wht, aes(lhs, estimate)) + geom_point()
#'
#' CI <- confint(wht)
#' fortify(CI)
#' ggplot(CI, aes(lhs, estimate, ymin = lwr, ymax = upr)) +
#' geom_pointrange()
#'
#' fortify(summary(wht))
#' ggplot(mapping = aes(lhs, estimate)) +
#' geom_linerange(aes(ymin = lwr, ymax = upr), data = CI) +
#' geom_point(aes(size = p), data = summary(wht)) +
#' scale_size(transform = "reverse")
#'
#' cld <- cld(wht)
#' fortify(cld)
#' }
NULL
#' @method fortify glht
#' @rdname fortify-multcomp
#' @export
fortify.glht <- function(model, data, ...) {
base::data.frame(
lhs = rownames(model$linfct),
rhs = model$rhs,
estimate = stats::coef(model),
check.names = FALSE,
stringsAsFactors = FALSE
)
}
#' @rdname fortify-multcomp
#' @method fortify confint.glht
#' @export
fortify.confint.glht <- function(model, data, ...) {
coef <- model$confint
colnames(coef) <- to_lower_ascii(colnames(coef))
base::data.frame(
lhs = rownames(coef),
rhs = model$rhs,
coef,
check.names = FALSE,
stringsAsFactors = FALSE
)
}
#' @method fortify summary.glht
#' @rdname fortify-multcomp
#' @export
fortify.summary.glht <- function(model, data, ...) {
coef <- as.data.frame(
model$test[c("coefficients", "sigma", "tstat", "pvalues")])
names(coef) <- c("estimate", "se", "t", "p")
base::data.frame(
lhs = rownames(coef),
rhs = model$rhs,
coef,
check.names = FALSE,
stringsAsFactors = FALSE
)
}
#' @method fortify cld
#' @rdname fortify-multcomp
#' @export
fortify.cld <- function(model, data, ...) {
base::data.frame(
lhs = names(model$mcletters$Letters),
letters = model$mcletters$Letters,
check.names = FALSE,
stringsAsFactors = FALSE
)
}
|
