Nothing
#' @name ceef_plot_graph
#' @title Cost-effectiveness Efficiency Frontier Plot By Graph Device
#'
#' @description Choice of base R, \pkg{ggplot2}.
#'
#' @template args-he
#' @param frontier_data Frontier data
#' @param frontier_params Frontier parameters
#' @param ... Additional arguments
NULL
#' @rdname ceef_plot_graph
#' @title CEEF plot ggplot2 version
#'
#' @import ggplot2
#' @importFrom grid unit
#'
ceef_plot_ggplot <- function(he,
frontier_data,
frontier_params,
...) {
scatter.data <- frontier_data$scatter.data
ceef.points <- frontier_data$ceef.points
orig.avg <- frontier_data$orig.avg
colour <- frontier_params$colour
pos <- frontier_params$pos
flip <- frontier_params$flip
relative <- frontier_params$relative
add_dominance_region <- frontier_params$dominance
add_frontier <- dim(ceef.points)[1] > 1
extra_args <- list(...)
opt_theme <- purrr::keep(extra_args, is.theme)
ceplane <- ggplot(ceef.points, aes(x = .data$x, y = .data$y))
if (add_dominance_region) {
ceplane <-
ceplane +
geom_rect(data = ceef.points,
aes(xmax = .data$x, ymin = .data$y),
ymax = 2*max(abs(range(scatter.data$c))),
xmin = -2*max(abs(range(scatter.data$e))),
alpha = 0.35,
fill = "grey75")
}
ceplane <- ceplane +
geom_hline(yintercept = 0, colour = "grey") +
geom_vline(xintercept = 0,
colour = "grey") +
geom_point(data = scatter.data,
aes(x = .data$e, y = .data$c, colour = .data$comp),
size = 1)
if (add_frontier)
ceplane <- ceplane + geom_path()
xlab <- ifelse(!relative, "Effectiveness", "Incremental effectiveness")
ylab <- ifelse(!relative, "Cost", "Incremental cost")
comparators <- sort(c(he$comp, he$ref))
### add circles
ceplane <- ceplane +
geom_point(
data = orig.avg,
aes(x = .data$e.orig, y = .data$c.orig),
size = 5.5,
colour = "black") +
geom_point(
data = orig.avg,
aes(x = .data$e.orig, y = .data$c.orig),
size = 4.5,
colour = "white") +
scale_colour_manual(
"",
labels = paste(comparators, ":", he$interventions[comparators]),
values = colour,
na.value = "black") +
labs(title = "Cost-effectiveness efficiency frontier",
x = xlab, y = ylab) +
theme_bw()
## add text into circles
for (i in seq_len(he$n_comparators)) {
ceplane <- ceplane +
geom_text(
data = orig.avg[i, ],
aes(x = .data$e.orig, y = .data$c.orig, label = .data$comp),
size = 3.5,
colour = ifelse(i %in% ceef.points$comp, "black", "grey60"))
}
legend_params <- make_legend_ggplot(he, pos)
ceplane <- ceplane +
theme(
legend.position = legend_params$legend.position,
legend.justification = legend_params$legend.justification,
legend.title = element_blank(),
legend.background = element_blank(),
text = element_text(size = 11),
legend.key.size = grid::unit(0.66, "lines"),
legend.spacing = grid::unit(-1.25, "line"),
panel.grid = element_blank(),
legend.key = element_blank(),
legend.text.align = 0,
plot.title = element_text(
hjust = 0.5,
face = "bold",
lineheight = 1.05,
size = 14.3)) +
opt_theme
if (flip) ceplane <- ceplane + coord_flip()
ceplane
}
#' @rdname ceef_plot_graph
#' @title CEEF plot base R version
#'
ceef_plot_base <- function(he,
frontier_data,
frontier_params) {
scatter.data <- frontier_data$scatter.data
ceef.points <- frontier_data$ceef.points
orig.avg <- frontier_data$orig.avg
colour <- frontier_params$colour
pos <- frontier_params$pos
flip <- frontier_params$flip
relative <- frontier_params$relative
dominance <- frontier_params$dominance
pos <- where_legend_always(he, pos)
if (flip) {
temp <- scatter.data$e
scatter.data$e <- scatter.data$c
scatter.data$c <- temp
temp <- ceef.points$x
ceef.points$x <- ceef.points$y
ceef.points$y <- temp
temp <- orig.avg$e.orig
orig.avg$e.orig <- orig.avg$c.orig
orig.avg$c.orig <- temp
rm(temp)
}
# set up plot window
xlab <- ifelse((!flip & !relative), "Effectiveness",
ifelse((!flip & relative), "Incremental effectiveness",
ifelse((flip & !relative),
"Cost", "Incremental cost")))
ylab <- ifelse((!flip & !relative), "Cost",
ifelse((!flip & relative), "Incremental cost",
ifelse((flip & !relative),
"Effectiveness", "Incremental effectiveness")))
plot(NULL,
xlim = c(min(range(scatter.data$e)[1],0), max(range(scatter.data$e)[2],0)),
ylim = c(min(range(scatter.data$c)[1],0), max(range(scatter.data$c)[2],0)),
main = "Cost-effectiveness efficiency frontier",
xlab = xlab,
ylab = ylab)
if (dominance) {
# add dominance regions
for (i in seq_len(dim(ceef.points)[1])) {
rect(
col = "grey95",
border = NA,
xleft = ifelse(!flip, -1, 1) * 2 * max(abs(range(scatter.data$e))),
xright = ceef.points$x[i],
ybottom = ceef.points$y[i],
ytop = ifelse(!flip, 1, -1) * 2 * max(abs(range(scatter.data$c)))
)
}
if (dim(ceef.points)[1] > 1)
for (i in 2:dim(ceef.points)[1]) {
rect(
col = "grey85",
border = NA,
xleft = ifelse(!flip, -1, 1) * 2 * max(abs(range(scatter.data$e))),
xright = ceef.points$x[ifelse(!flip, i - 1, i)],
ybottom = ceef.points$y[ifelse(!flip, i, i - 1)],
ytop = ifelse(!flip, 1, -1) * 2 * max(abs(range(scatter.data$c)))
)
}
}
abline(h = 0, v = 0, col = "grey")
##TODO:
# plot the scatter
# matplot()?
# will need to add sim number column to cast
# do this in prep_frontier_data()
comparators <- unique(scatter.data$comp)
for (i in seq_len(he$n_comparators)) {
sub_scatter <-
dplyr::filter(scatter.data,
.data$comp == comparators[i])
points(sub_scatter[, c("e", "c")],
type = "p",
pch = 20,
cex = 0.35,
col = colour[i])
}
##TODO: why are these two separate arrays?
# add frontier
points(ceef.points[, c("x", "y")], type = "l", lwd = 2)
# add circles
points(orig.avg[, c("e.orig", "c.orig")],
pch = 21, cex = 2, bg = "white", col = "black")
### legend
# add text; grey if not on the frontier
for (i in seq_len(he$n_comparators)) {
text(orig.avg[i, c("e.orig", "c.orig")],
labels = orig.avg[i, 3],
col = ifelse(i %in% ceef.points$comp, "black", "grey60"),
cex = 0.75)
}
comparators <- sort(c(he$comp, he$ref))
text <- paste(comparators, ":", he$interventions[comparators])
legend(pos, text, col = colour, cex = 0.7, bty = "n", lty = 1)
# because dominance areas overwrite outer box
box()
}
Any scripts or data that you put into this service are public.
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.