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#' Plot the thresholds
#'
#' \code{plotthresholds_} is the standard evaluation SE function associated
#' to the non-standard evaluation NSE function \code{plotthresholds}.
#' \href{http://adv-r.had.co.nz/Computing-on-the-language.html}{SE functions can be more easily called from other functions.}
#' In SE functions, you need to quote the names of the variables.
#' @param qp output from quickpsy.
#' @param x Name of the variable to displayed in the x-axis.
#' @param panel Name of the variable to be split in panels.
#' @param xpanel Name of the variable to be split in horizontal panels.
#' @param ypanel Name of the variable to be split in vertical panels.
#' @param color Name of the variable codded by color.
#' @param geom If \code{'bar'} displays bars.
#' @param sizeerrorbar Line width of the error bars.
#' If \code{'point'} displays points (default is 'bar').
#' @param ci If \code{FALSE} confidence intervals are not plotted
#' (default is \code{TRUE}).
#' @seealso \code{\link{plotthresholds}}
#' @examples
#' library(MPDiR) # contains the Vernier data
#' fit <- quickpsy(Vernier, Phaseshift, NumUpward, N,
#' grouping = .(Direction, WaveForm, TempFreq), B = 10)
#'
#' plotthresholds_(fit, x = 'WaveForm')
#' plotthresholds_(fit, xpanel = 'Direction')
#' plotthresholds_(fit, color = 'Direction')
#' plotthresholds_(fit, color = 'Direction', ypanel = 'WaveForm', geom = 'point')
#' @export
plotthresholds_ <- function(qp, x = NULL, panel = NULL, xpanel = NULL,
ypanel = NULL, color = NULL, geom = 'bar', ci = T,
sizeerrorbar = .5) {
if (!('thresholds' %in% names(qp)))
stop('To plot the thresholds, quickpsy should be called with thresholds = TRUE', call. = F)
if (!('threinf' %in% names(qp$thresholds))) ci <- F
p <- ggplot() + ylab(qp$x)
groups <- qp$groups
ngroup <- length(groups)
if (ngroup == 0) { ###########################################################
if (geom == 'bar') {
p <- p + geom_bar(data = qp$thresholds,
aes_string(x = 0, y = 'thre'), fill = 'grey',
stat = 'identity', position = 'dodge') +
theme(axis.title.x = element_blank(),
axis.text.x = element_blank())
if (ci) p <- p + geom_errorbar(data = qp$thresholds,
aes_string(x = 0, ymin = 'threinf', ymax = 'thresup'),
stat = 'identity', position = 'dodge', width = .5,
size=sizeerrorbar)
}
if (geom == 'point') {
p <- p + geom_point(data = qp$thresholds,
aes_string(x = 0, y = 'thre')) +
theme(axis.title.x = element_blank(),
axis.text.x = element_blank())
if (ci) p <- p + geom_linerange(data = qp$thresholds,
aes_string(x = 0, ymin = 'threinf', ymax = 'thresup'),
stat = 'identity', position = 'dodge', width = .5)
}
}
if (ngroup == 1) { ###########################################################
if (is.null(color) && is.null(x)) color <- groups[[1]]
if (!is.null(color)) {
if (geom == 'bar') {
qp$thresholds[[color]] <- factor(qp$thresholds[[color]])
p <- p + geom_bar(data = qp$thresholds,
aes_string(x = color,fill = color, y = 'thre'),
stat = 'identity', position = 'dodge')
if (ci) {
p <- p + geom_errorbar(data = qp$thresholds,
aes_string(x = color, ymin = 'threinf',
ymax = 'thresup'), stat = 'identity',
position = 'dodge', width = .5,
size=sizeerrorbar)
}
}
if (geom == 'point') {
p <- p + geom_point(data = qp$thresholds,
aes_string(x = color,color = color, y = 'thre'))
if (ci) p <- p + geom_linerange(data = qp$thresholds,
aes_string(x = color, color = color, ymin = 'threinf',
ymax = 'thresup'), stat = 'identity', position = 'dodge')
}
}
if (is.null(color) && !is.null(x)) {
if (geom == 'bar') {
p <- p + geom_bar(data = qp$thresholds, fill ='grey',
aes_string(x = x, y = 'thre'),
stat = 'identity', position = 'dodge')
if (ci) p <- p + geom_errorbar(data = qp$thresholds,
aes_string(x = x, ymin = 'threinf', ymax = 'thresup'),
stat = 'identity', position = 'dodge', width = .5,
size=sizeerrorbar)
}
if (geom == 'point') {
p <- p + geom_point(data = qp$thresholds, fill ='grey',
aes_string(x = x, y = 'thre')) +
geom_line(data = qp$thresholds, fill ='grey',
aes_string(x = x, y = 'thre'))
if (ci) p <- p + geom_linerange(data = qp$thresholds,
aes_string(x = x, ymin = 'threinf', ymax = 'thresup'),
stat = 'identity', position = 'dodge')
}
}
}
if (ngroup == 2) { ###########################################################
if (!is.null(x)) groups <- setdiff(groups, x)
if (!is.null(color)) groups <- setdiff(groups, color)
if (!is.null(xpanel)) groups <- setdiff(groups, xpanel)
if (!is.null(ypanel)) groups <- setdiff(groups, ypanel)
if (!is.null(panel)) groups <- setdiff(groups, panel)
if (is.null(x)) {
x <- groups[[1]]
groups <- setdiff(groups, groups[[1]])
}
if (is.null(xpanel) && is.null(ypanel) && is.null(panel)) {
if (is.null(color)) color <- groups[[1]]
qp$thresholds[[color]] <- factor(qp$thresholds[[color]])
if (geom == 'bar') {
qp$thresholds[[x]] <- factor(qp$thresholds[[x]])
p <- p + geom_bar(data = qp$thresholds,
aes_string(x = x, fill = color, y = 'thre'),
stat = 'identity', position = 'dodge')
if (ci) {
p <- p + geom_errorbar(data = qp$thresholds, width =.5,
aes_string(x = x, fill = color, ymin = 'threinf',
ymax = 'thresup'), stat = 'identity',
size=sizeerrorbar,
position = position_dodge(.9))
}
}
if (geom == 'point') {
p <- p + geom_point(data = qp$thresholds,
aes_string(x = x, color = color, y = 'thre')) +
geom_line(data = qp$thresholds,
aes_string(x = x, color = color, group = color, y = 'thre'))
if (ci) {
p <- p + geom_linerange(data = qp$thresholds,
aes_string(x = x, color = color, group = color,
ymin = 'threinf', ymax = 'thresup'))
}
}
}
else {
if (!is.null(panel)) {
p <- p + facet_wrap(as.formula(paste0('~',panel)))
}
if (!is.null(xpanel)) {
p <- p + facet_grid(as.formula(paste0('.~',xpanel)))
}
if (!is.null(ypanel)) {
p <- p + facet_grid(as.formula(paste0(ypanel,'~.')))
}
if (geom == 'bar') {
qp$thresholds[[x]] <- factor(qp$thresholds[[x]])
p <- p + geom_bar(data = qp$thresholds,
aes_string(x = x, y = 'thre'),
stat = 'identity', position = 'dodge')
if (ci) {
p <- p + geom_errorbar(data = qp$thresholds, width =.5,
aes_string(x = x, ymin = 'threinf',
ymax = 'thresup'), stat = 'identity',
size=sizeerrorbar,
position = position_dodge(.9))
}
}
if (geom == 'point') {
p <- p + geom_point(data = qp$thresholds,
aes_string(x = x, y = 'thre')) +
geom_line(data = qp$thresholds,
aes_string(x = x, y = 'thre'))
if (ci) {
p <- p + geom_linerange(data = qp$thresholds,
aes_string(x = x,
ymin = 'threinf', ymax = 'thresup'))
}
}
}
}
if (ngroup == 3) { ###########################################################
if (!is.null(x)) groups <- setdiff(groups, x)
if (!is.null(color)) groups <- setdiff(groups, color)
if (!is.null(xpanel)) groups <- setdiff(groups, xpanel)
if (!is.null(ypanel)) groups <- setdiff(groups, ypanel)
if (!is.null(panel)) groups <- setdiff(groups, panel)
if (is.null(x)) {
x <- groups[[1]]
groups <- setdiff(groups,groups[[1]])
}
if (is.null(color)) {
color <- groups[[1]]
groups <- setdiff(groups,groups[[1]])
}
if (is.null(xpanel) && is.null(ypanel) && is.null(panel)) {
panel <- groups[[1]]
p <- p + facet_wrap(as.formula(paste0('~',panel)))
}
else {
if (!is.null(panel)) {
p <- p + facet_wrap(as.formula(paste0('~',panel)))
}
if (!is.null(xpanel)) {
p <- p + facet_grid(as.formula(paste0('.~',xpanel)))
}
if (!is.null(ypanel)) {
p <- p + facet_grid(as.formula(paste0(ypanel,'~.')))
}
}
qp$thresholds[[color]] <- factor(qp$thresholds[[color]])
if (geom == 'bar') {
qp$thresholds[[x]] <- factor(qp$thresholds[[x]])
p <- p + geom_bar(data = qp$thresholds,
aes_string(x = x, fill = color, y = 'thre'),
stat = 'identity', position = 'dodge')
if (ci) {
p <- p + geom_errorbar(data = qp$thresholds, width =.5,
aes_string(x = x, group = color, ymin = 'threinf',
ymax = 'thresup'), stat = 'identity',
size=sizeerrorbar,
position = position_dodge(.9))
}
}
if (geom == 'point') {
p <- p + geom_point(data = qp$thresholds,
aes_string(x = x, color = color, y = 'thre')) +
geom_line(data = qp$thresholds,
aes_string(x = x, color = color, group = color, y = 'thre'))
if (ci) {
p <- p + geom_linerange(data = qp$thresholds,
aes_string(x = x, color = color, group = color,
ymin = 'threinf', ymax = 'thresup'))
}
}
}
p
}
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