Nothing
R/plotmgvp.R
In gluvarpro: Glucose Variability Measures from Continuous Glucose Monitoring Data
Defines functions
plotmgvp
Documented in
plotmgvp
plotmgvp <- function(x, col = FALSE, var = "auc") {
if(dim(x)[1] == 0) {
stop("Dimension of data-set must be higher than 0.")
}
if(var == "auc") {
var <- c("lauc", "hauc", "auc")
} else if(var == "bgi") {
var <- c("lbgi", "hbgi", "bgi")
} else if(var == "mage") {
var <- c("ge", "lmage", "hmage", "mage")
} else if(var == "pstr") {
var <- c("lpstr", "hpstr", "npstr", "pstr")
}
names <- c("date", "time", var)
names <- match(names, names(x))
if(any(is.na(names))) {
stop(paste("Names of data-set must be date, time and
one of these groups: c(lauc, hauc, auc), c(lbgi, hbgi, bgi),
c(ge, lmage, hmage, mage), or c(lpstr, hpstr, npstr, pstr)."))
}
if(any(is.na(as.character(x$date))) || any(is.na(as.character(x$time)))) {
stop("Variables date and time must be non-NA values.")
}
date.time <- as.POSIXct(paste(as.character(x$date), as.character(x$time)), format = "%Y/%m/%d %H:%M:%S")
position <- match(var, names(x))
variable <- c()
for(i in 1:length(var)){
variable <- c(variable, !is.numeric(x[,position[3]]))
}
if(any(is.na(date.time))) {
stop("Variable date and time must have yyyy/mm/dd and hh:mm:ss format.")
}
if(all(variable)) {
stop("Variable must be numeric.")
}
if(!is.logical(col)){
stop("col must be logical.")
}
if(col != FALSE && col != TRUE) {
stop("col must be FALSE or TRUE.")
}
suppressWarnings(if(all(var != c("lauc", "hauc", "auc")) &&
all(var != c("lbgi", "hbgi", "bgi")) &&
all(var != c("lmage", "hmage", "ge", "mage")) &&
all(var != c("lpstr", "hpstr", "npstr", "pstr"))) {
stop("var must be auc, bgi, mage or pstr.")
})
xt <- data.frame(matrix(nrow = 24, ncol = 6))
names(xt) <- c("hour", "4h", "6h", "8h", "12h", "24h")
xt$hour <- 0:23
xt$"4h" <- c(rep(1, 4), rep(2, 4), rep(3, 4), rep(4, 4), rep(5, 4), rep(6, 4))
xt$"6h" <- c(rep(1, 6), rep(2, 6), rep(3, 6), rep(4, 6))
xt$"8h" <- c(rep(1, 8), rep(2, 8), rep(3, 8))
xt$"12h" <- c(rep(1, 12), rep(2, 12))
xt$"24h" <- 1
t <- 24
t <- paste(t, "h", sep = "")
x$serie <- NA
colors <- c("#80B1D3", "#B3DE69", "#FB8072", "#B3B3B3", "#8DD3C7", "#FDB462", "#BEBADA", "#1F78B4", "#BF812D", "#BC80BD", "#D53E4F")
x$color <- NA
date <- levels(as.factor(as.character(x$date)))
j <- 1
for(i in 1:length(date)) {
position <- which(x$date == date[i])
x$serie[position] <- as.numeric(i)
x$color[position] <- colors[j]
if(j == length(colors)) {
j <- 1
} else {
j <- j + 1
}
}
hour <- separate(x, time, into = c("hour", "minutes", "seconds"), ":")
hour <- as.numeric(hour$hour)
for(i in 1:length(hour)) {
for(j in 0:23) {
if(hour[i] == j) {
x$serie[i] <- paste(x$serie[i], ".", xt[j + 1, t], sep = "")
}
}
}
if(length(var) == 3) {
glist <- list()
y.plot.min <- floor(min(x[, var]))-floor(min(x[, var]))%%10
y.plot.max <- floor(max(x[, var]))+floor(min(x[, var]))%%10
for(k in 1:3) {
variable <- c("glucose", "adrr", "lauc", "hauc", "auc", "lbgi", "hbgi", "bgi",
"conga", "cv", "iqr", "ji", "li", "ge", "lmage", "hmage", "mage",
"mean", "mv", "sd", "lpstr", "hpstr", "npstr", "pstr")
position <- which(variable == var[k])
ylabel <- c("GLUCOSE [mg/dl]", "ADRR", "LAUC [mg/dl]", "HAUC [mg/dl]", "AUC [mg/dl]",
"LBGI", "HBGI", "BGI",
"CONGA [mg/dl]", "CV [mg/dl]", "IQR [mg/dl]", "JI [(mg/dl)^2]", "LI [(mg/dl)^2/h]",
"GE", "LMAGE [mg/dl]", "HMAGE [mg/dl]", "MAGE [mg/dl]",
"MEAN [mg/dl]", "MV", "SD [mg/dl]",
"LPSTR [%]", "HPSTR [%]", "NPSTR [%]", "PSTR [%]")
ylabel <- ylabel[position]
u <- as.numeric(unclass(date.time))
u <- u - min(u)
y <- as.numeric(unclass(as.Date(as.character(x$date), format = "%Y/%m/%d")))
y <- as.numeric(levels(as.factor(as.character(y))))
y <- y - min(y)
y <- 0:max(y)
if(length(y) > 1) {
position <- 0:round(max(u) / (60 * 60 * 24))
z <- list()
for(i in 1:length(position)) {
z[i] <- list(position[i])
}
names(z) <- 60 * 60 * 24 * position
if(length(z) > 20) {
max <- length(z) + (10 - length(z)%%20)
position <- abs(floor(- length(z)/20))
if(position %% 2 != 0) {
position <- position + 1
}
position <- round(seq(1, max, position))
}
z <- z[position]
if(col == FALSE) {
g <- qplot(u, x[, var[k]], data = x, geom = "line", size = I(0.5), fill = factor(x$serie)) + geom_line(color = "blue") +
theme_classic() +
labs(x = "TIME [days]", y = ylabel) +
scale_x_continuous(breaks = as.numeric(names(z)), labels = z) +
scale_y_continuous(breaks= pretty_breaks(), limits=c(y.plot.min, y.plot.max)) +
theme(axis.text.x=element_text(size = 15), axis.text.y=element_text(size = 15)) +
theme(axis.text = element_text(size = 20), axis.title = element_text(size = 20)) +
theme(legend.position="none") +
theme(strip.text.x = element_text(size = 15), strip.text.y = element_text(size = 15))
glist[k] <- list(ggplotGrob(g))
} else {
g <- qplot(u, x[, var[k]], data = x, geom = "line", size = I(0.5), fill = factor(x$serie)) + geom_line(color = factor(x$color)) +
theme_classic() +
labs(x = "TIME [days]", y = ylabel) +
scale_x_continuous(breaks = as.numeric(names(z)), labels = z) +
scale_y_continuous(breaks= pretty_breaks(), limits=c(y.plot.min, y.plot.max)) +
theme(axis.text.x=element_text(size = 15), axis.text.y=element_text(size = 15)) +
theme(axis.text = element_text(size = 20), axis.title = element_text(size = 20)) +
theme(legend.position="none") +
theme(strip.text.x = element_text(size = 15), strip.text.y = element_text(size = 15))
glist[k] <- list(ggplotGrob(g))
}
} else {
if(max(u) >= (60 * 60)) {
position <- 0:round(max(u) / (60 * 60))
z <- list()
for(i in 1:length(position)) {
z[i] <- list(position[i])
}
names(z) <- 60 * 60 * position
if(length(z) > 20) {
max <- length(z) + (10 - length(z)%%20)
position <- abs(floor(- length(z)/20))
if(position %% 2 != 0) {
position <- position + 1
}
position <- round(seq(1, max, position))
}
z <- z[position]
g <- qplot(u, x[, var[k]], data = x, geom = "line", size = I(0.5), fill = factor(x$serie)) + geom_line(color = "blue") +
theme_classic() +
labs(x = "TIME [hours]", y = ylabel) +
scale_x_continuous(breaks = as.numeric(names(z)), labels = z) +
scale_y_continuous(breaks= pretty_breaks(), limits=c(y.plot.min, y.plot.max)) +
theme(axis.text.x=element_text(size = 15), axis.text.y=element_text(size = 15)) +
theme(axis.text = element_text(size = 20), axis.title = element_text(size = 20)) +
theme(legend.position="none") +
theme(strip.text.x = element_text(size = 15), strip.text.y = element_text(size = 15))
glist[k] <- list(ggplotGrob(g))
} else {
position <- 0:round(max(u) / (60))
z <- list()
for(i in 1:length(position)) {
z[i] <- list(position[i])
}
names(z) <- 60 * position
if(length(z) > 20) {
max <- length(z) + (10 - length(z)%%20)
position <- abs(floor(- length(z)/20))
if(position %% 2 != 0) {
position <- position + 1
}
position <- round(seq(1, max, position))
}
z <- z[position]
g <- qplot(u, x[, var[k]], data = x, geom = "line", size = I(0.5), fill = factor(x$serie)) + geom_line(color = "blue") +
theme_classic() +
labs(x = "TIME [minutes]", y = ylabel) +
scale_x_continuous(breaks = as.numeric(names(z)), labels = z) +
scale_y_continuous(breaks= pretty_breaks(), limits=c(y.plot.min, y.plot.max)) +
theme(axis.text.x=element_text(size = 15), axis.text.y=element_text(size = 15)) +
theme(axis.text = element_text(size = 20), axis.title = element_text(size = 20)) +
theme(legend.position="none") +
theme(strip.text.x = element_text(size = 15), strip.text.y = element_text(size = 15))
glist[k] <- list(ggplotGrob(g))
}
}
}
g <- grid.arrange(grid.arrange(glist[[1]], glist[[2]], ncol = 2), grid.arrange(glist[[3]]))
} else if(length(var) == 4) {
glist <- list()
y.plot.min <- floor(min(x[, var]))-1
y.plot.max <- floor(max(x[, var]))+3
for(k in 1:4) {
variable <- c("glucose", "adrr", "lauc", "hauc", "auc", "lbgi", "hbgi", "bgi",
"conga", "cv", "iqr", "ji", "li", "ge", "lmage", "hmage", "mage",
"mean", "mv", "sd", "lpstr", "hpstr", "npstr", "pstr")
position <- which(variable == var[k])
ylabel <- c("GLUCOSE [mg/dl]", "ADRR", "LAUC [mg/dl]", "HAUC [mg/dl]", "AUC [mg/dl]",
"LBGI", "HBGI", "BGI",
"CONGA [mg/dl]", "CV [mg/dl]", "IQR [mg/dl]", "JI [(mg/dl)^2]", "LI [(mg/dl)^2/h]",
"GE", "LMAGE [mg/dl]", "HMAGE [mg/dl]", "MAGE [mg/dl]",
"MEAN [mg/dl]", "MV", "SD [mg/dl]",
"LPSTR [%]", "HPSTR [%]", "NPSTR [%]", "PSTR [%]")
ylabel <- ylabel[position]
u <- as.numeric(unclass(date.time))
u <- u - min(u)
y <- as.numeric(unclass(as.Date(as.character(x$date), format = "%Y/%m/%d")))
y <- as.numeric(levels(as.factor(as.character(y))))
y <- y - min(y)
y <- 0:max(y)
if(length(y) > 1) {
position <- 0:round(max(u) / (60 * 60 * 24))
z <- list()
for(i in 1:length(position)) {
z[i] <- list(position[i])
}
names(z) <- 60 * 60 * 24 * position
if(length(z) > 20) {
max <- length(z) + (10 - length(z)%%20)
position <- abs(floor(- length(z)/20))
if(position %% 2 != 0) {
position <- position + 1
}
position <- round(seq(1, max, position))
}
z <- z[position]
if(col == FALSE) {
g <- qplot(u, x[, var[k]], data = x, geom = "line", size = I(0.5), fill = factor(x$serie)) + geom_line(color = "blue") +
theme_classic() +
labs(x = "TIME [days]", y = ylabel) +
scale_x_continuous(breaks = as.numeric(names(z)), labels = z) +
scale_y_continuous(breaks= pretty_breaks(), limits=c(y.plot.min, y.plot.max)) +
theme(axis.text.x=element_text(size = 15), axis.text.y=element_text(size = 15)) +
theme(axis.text = element_text(size = 20), axis.title = element_text(size = 20)) +
theme(legend.position="none") +
theme(strip.text.x = element_text(size = 15), strip.text.y = element_text(size = 15))
glist[k] <- list(ggplotGrob(g))
} else {
g <- qplot(u, x[, var[k]], data = x, geom = "line", size = I(0.8), fill = factor(x$serie)) + geom_line(color = factor(x$color), size = 1) +
theme_classic() +
labs(x = "TIME [days]", y = ylabel) +
scale_x_continuous(breaks = as.numeric(names(z)), labels = z) +
scale_y_continuous(breaks= pretty_breaks(), limits=c(y.plot.min, y.plot.max)) +
theme(axis.text.x=element_text(size = 15), axis.text.y=element_text(size = 15)) +
theme(axis.text = element_text(size = 20), axis.title = element_text(size = 20)) +
theme(legend.position="none") +
theme(strip.text.x = element_text(size = 15), strip.text.y = element_text(size = 15))
glist[k] <- list(ggplotGrob(g))
}
} else {
if(max(u) >= (60 * 60)) {
position <- 0:round(max(u) / (60 * 60))
z <- list()
for(i in 1:length(position)) {
z[i] <- list(position[i])
}
names(z) <- 60 * 60 * position
if(length(z) > 20) {
max <- length(z) + (10 - length(z)%%20)
position <- abs(floor(- length(z)/20))
if(position %% 2 != 0) {
position <- position + 1
}
position <- round(seq(1, max, position))
}
z <- z[position]
g <- qplot(u, x[, var[k]], data = x, geom = "line", size = I(0.5), fill = factor(x$serie)) + geom_line(color = "blue") +
theme_classic() +
labs(x = "TIME [hours]", y = ylabel) +
scale_x_continuous(breaks = as.numeric(names(z)), labels = z) +
scale_y_continuous(breaks= pretty_breaks(), limits=c(y.plot.min, y.plot.max)) +
theme(axis.text.x=element_text(size = 15), axis.text.y=element_text(size = 15)) +
theme(axis.text = element_text(size = 20), axis.title = element_text(size = 20)) +
theme(legend.position="none") +
theme(strip.text.x = element_text(size = 15), strip.text.y = element_text(size = 15))
glist[k] <- list(ggplotGrob(g))
} else {
position <- 0:round(max(u) / (60))
z <- list()
for(i in 1:length(position)) {
z[i] <- list(position[i])
}
names(z) <- 60 * position
if(length(z) > 20) {
max <- length(z) + (10 - length(z)%%20)
position <- abs(floor(- length(z)/20))
if(position %% 2 != 0) {
position <- position + 1
}
position <- round(seq(1, max, position))
}
z <- z[position]
glist[k] <- qplot(u, x[, var[k]], data = x, geom = "line", size = I(0.5), fill = factor(x$serie)) + geom_line(color = "blue") +
theme_classic() +
labs(x = "TIME [minutes]", y = ylabel) +
scale_x_continuous(breaks = as.numeric(names(z)), labels = z) +
scale_y_continuous(breaks= pretty_breaks(), limits=c(y.plot.min, y.plot.max)) +
theme(axis.text.x=element_text(size = 15), axis.text.y=element_text(size = 15)) +
theme(axis.text = element_text(size = 20), axis.title = element_text(size = 20)) +
theme(legend.position="none") +
theme(strip.text.x = element_text(size = 15), strip.text.y = element_text(size = 15))
glist[k] <- list(ggplotGrob(g))
}
}
}
g <- grid.arrange(glist[[1]], glist[[2]], glist[[3]], glist[[4]], ncol = 2)
}
suppressWarnings(plot(g))
}
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Defines functions plotmgvp
Documented in plotmgvp
plotmgvp <- function(x, col = FALSE, var = "auc") {
if(dim(x)[1] == 0) {
stop("Dimension of data-set must be higher than 0.")
}
if(var == "auc") {
var <- c("lauc", "hauc", "auc")
} else if(var == "bgi") {
var <- c("lbgi", "hbgi", "bgi")
} else if(var == "mage") {
var <- c("ge", "lmage", "hmage", "mage")
} else if(var == "pstr") {
var <- c("lpstr", "hpstr", "npstr", "pstr")
}
names <- c("date", "time", var)
names <- match(names, names(x))
if(any(is.na(names))) {
stop(paste("Names of data-set must be date, time and
one of these groups: c(lauc, hauc, auc), c(lbgi, hbgi, bgi),
c(ge, lmage, hmage, mage), or c(lpstr, hpstr, npstr, pstr)."))
}
if(any(is.na(as.character(x$date))) || any(is.na(as.character(x$time)))) {
stop("Variables date and time must be non-NA values.")
}
date.time <- as.POSIXct(paste(as.character(x$date), as.character(x$time)), format = "%Y/%m/%d %H:%M:%S")
position <- match(var, names(x))
variable <- c()
for(i in 1:length(var)){
variable <- c(variable, !is.numeric(x[,position[3]]))
}
if(any(is.na(date.time))) {
stop("Variable date and time must have yyyy/mm/dd and hh:mm:ss format.")
}
if(all(variable)) {
stop("Variable must be numeric.")
}
if(!is.logical(col)){
stop("col must be logical.")
}
if(col != FALSE && col != TRUE) {
stop("col must be FALSE or TRUE.")
}
suppressWarnings(if(all(var != c("lauc", "hauc", "auc")) &&
all(var != c("lbgi", "hbgi", "bgi")) &&
all(var != c("lmage", "hmage", "ge", "mage")) &&
all(var != c("lpstr", "hpstr", "npstr", "pstr"))) {
stop("var must be auc, bgi, mage or pstr.")
})
xt <- data.frame(matrix(nrow = 24, ncol = 6))
names(xt) <- c("hour", "4h", "6h", "8h", "12h", "24h")
xt$hour <- 0:23
xt$"4h" <- c(rep(1, 4), rep(2, 4), rep(3, 4), rep(4, 4), rep(5, 4), rep(6, 4))
xt$"6h" <- c(rep(1, 6), rep(2, 6), rep(3, 6), rep(4, 6))
xt$"8h" <- c(rep(1, 8), rep(2, 8), rep(3, 8))
xt$"12h" <- c(rep(1, 12), rep(2, 12))
xt$"24h" <- 1
t <- 24
t <- paste(t, "h", sep = "")
x$serie <- NA
colors <- c("#80B1D3", "#B3DE69", "#FB8072", "#B3B3B3", "#8DD3C7", "#FDB462", "#BEBADA", "#1F78B4", "#BF812D", "#BC80BD", "#D53E4F")
x$color <- NA
date <- levels(as.factor(as.character(x$date)))
j <- 1
for(i in 1:length(date)) {
position <- which(x$date == date[i])
x$serie[position] <- as.numeric(i)
x$color[position] <- colors[j]
if(j == length(colors)) {
j <- 1
} else {
j <- j + 1
}
}
hour <- separate(x, time, into = c("hour", "minutes", "seconds"), ":")
hour <- as.numeric(hour$hour)
for(i in 1:length(hour)) {
for(j in 0:23) {
if(hour[i] == j) {
x$serie[i] <- paste(x$serie[i], ".", xt[j + 1, t], sep = "")
}
}
}
if(length(var) == 3) {
glist <- list()
y.plot.min <- floor(min(x[, var]))-floor(min(x[, var]))%%10
y.plot.max <- floor(max(x[, var]))+floor(min(x[, var]))%%10
for(k in 1:3) {
variable <- c("glucose", "adrr", "lauc", "hauc", "auc", "lbgi", "hbgi", "bgi",
"conga", "cv", "iqr", "ji", "li", "ge", "lmage", "hmage", "mage",
"mean", "mv", "sd", "lpstr", "hpstr", "npstr", "pstr")
position <- which(variable == var[k])
ylabel <- c("GLUCOSE [mg/dl]", "ADRR", "LAUC [mg/dl]", "HAUC [mg/dl]", "AUC [mg/dl]",
"LBGI", "HBGI", "BGI",
"CONGA [mg/dl]", "CV [mg/dl]", "IQR [mg/dl]", "JI [(mg/dl)^2]", "LI [(mg/dl)^2/h]",
"GE", "LMAGE [mg/dl]", "HMAGE [mg/dl]", "MAGE [mg/dl]",
"MEAN [mg/dl]", "MV", "SD [mg/dl]",
"LPSTR [%]", "HPSTR [%]", "NPSTR [%]", "PSTR [%]")
ylabel <- ylabel[position]
u <- as.numeric(unclass(date.time))
u <- u - min(u)
y <- as.numeric(unclass(as.Date(as.character(x$date), format = "%Y/%m/%d")))
y <- as.numeric(levels(as.factor(as.character(y))))
y <- y - min(y)
y <- 0:max(y)
if(length(y) > 1) {
position <- 0:round(max(u) / (60 * 60 * 24))
z <- list()
for(i in 1:length(position)) {
z[i] <- list(position[i])
}
names(z) <- 60 * 60 * 24 * position
if(length(z) > 20) {
max <- length(z) + (10 - length(z)%%20)
position <- abs(floor(- length(z)/20))
if(position %% 2 != 0) {
position <- position + 1
}
position <- round(seq(1, max, position))
}
z <- z[position]
if(col == FALSE) {
g <- qplot(u, x[, var[k]], data = x, geom = "line", size = I(0.5), fill = factor(x$serie)) + geom_line(color = "blue") +
theme_classic() +
labs(x = "TIME [days]", y = ylabel) +
scale_x_continuous(breaks = as.numeric(names(z)), labels = z) +
scale_y_continuous(breaks= pretty_breaks(), limits=c(y.plot.min, y.plot.max)) +
theme(axis.text.x=element_text(size = 15), axis.text.y=element_text(size = 15)) +
theme(axis.text = element_text(size = 20), axis.title = element_text(size = 20)) +
theme(legend.position="none") +
theme(strip.text.x = element_text(size = 15), strip.text.y = element_text(size = 15))
glist[k] <- list(ggplotGrob(g))
} else {
g <- qplot(u, x[, var[k]], data = x, geom = "line", size = I(0.5), fill = factor(x$serie)) + geom_line(color = factor(x$color)) +
theme_classic() +
labs(x = "TIME [days]", y = ylabel) +
scale_x_continuous(breaks = as.numeric(names(z)), labels = z) +
scale_y_continuous(breaks= pretty_breaks(), limits=c(y.plot.min, y.plot.max)) +
theme(axis.text.x=element_text(size = 15), axis.text.y=element_text(size = 15)) +
theme(axis.text = element_text(size = 20), axis.title = element_text(size = 20)) +
theme(legend.position="none") +
theme(strip.text.x = element_text(size = 15), strip.text.y = element_text(size = 15))
glist[k] <- list(ggplotGrob(g))
}
} else {
if(max(u) >= (60 * 60)) {
position <- 0:round(max(u) / (60 * 60))
z <- list()
for(i in 1:length(position)) {
z[i] <- list(position[i])
}
names(z) <- 60 * 60 * position
if(length(z) > 20) {
max <- length(z) + (10 - length(z)%%20)
position <- abs(floor(- length(z)/20))
if(position %% 2 != 0) {
position <- position + 1
}
position <- round(seq(1, max, position))
}
z <- z[position]
g <- qplot(u, x[, var[k]], data = x, geom = "line", size = I(0.5), fill = factor(x$serie)) + geom_line(color = "blue") +
theme_classic() +
labs(x = "TIME [hours]", y = ylabel) +
scale_x_continuous(breaks = as.numeric(names(z)), labels = z) +
scale_y_continuous(breaks= pretty_breaks(), limits=c(y.plot.min, y.plot.max)) +
theme(axis.text.x=element_text(size = 15), axis.text.y=element_text(size = 15)) +
theme(axis.text = element_text(size = 20), axis.title = element_text(size = 20)) +
theme(legend.position="none") +
theme(strip.text.x = element_text(size = 15), strip.text.y = element_text(size = 15))
glist[k] <- list(ggplotGrob(g))
} else {
position <- 0:round(max(u) / (60))
z <- list()
for(i in 1:length(position)) {
z[i] <- list(position[i])
}
names(z) <- 60 * position
if(length(z) > 20) {
max <- length(z) + (10 - length(z)%%20)
position <- abs(floor(- length(z)/20))
if(position %% 2 != 0) {
position <- position + 1
}
position <- round(seq(1, max, position))
}
z <- z[position]
g <- qplot(u, x[, var[k]], data = x, geom = "line", size = I(0.5), fill = factor(x$serie)) + geom_line(color = "blue") +
theme_classic() +
labs(x = "TIME [minutes]", y = ylabel) +
scale_x_continuous(breaks = as.numeric(names(z)), labels = z) +
scale_y_continuous(breaks= pretty_breaks(), limits=c(y.plot.min, y.plot.max)) +
theme(axis.text.x=element_text(size = 15), axis.text.y=element_text(size = 15)) +
theme(axis.text = element_text(size = 20), axis.title = element_text(size = 20)) +
theme(legend.position="none") +
theme(strip.text.x = element_text(size = 15), strip.text.y = element_text(size = 15))
glist[k] <- list(ggplotGrob(g))
}
}
}
g <- grid.arrange(grid.arrange(glist[[1]], glist[[2]], ncol = 2), grid.arrange(glist[[3]]))
} else if(length(var) == 4) {
glist <- list()
y.plot.min <- floor(min(x[, var]))-1
y.plot.max <- floor(max(x[, var]))+3
for(k in 1:4) {
variable <- c("glucose", "adrr", "lauc", "hauc", "auc", "lbgi", "hbgi", "bgi",
"conga", "cv", "iqr", "ji", "li", "ge", "lmage", "hmage", "mage",
"mean", "mv", "sd", "lpstr", "hpstr", "npstr", "pstr")
position <- which(variable == var[k])
ylabel <- c("GLUCOSE [mg/dl]", "ADRR", "LAUC [mg/dl]", "HAUC [mg/dl]", "AUC [mg/dl]",
"LBGI", "HBGI", "BGI",
"CONGA [mg/dl]", "CV [mg/dl]", "IQR [mg/dl]", "JI [(mg/dl)^2]", "LI [(mg/dl)^2/h]",
"GE", "LMAGE [mg/dl]", "HMAGE [mg/dl]", "MAGE [mg/dl]",
"MEAN [mg/dl]", "MV", "SD [mg/dl]",
"LPSTR [%]", "HPSTR [%]", "NPSTR [%]", "PSTR [%]")
ylabel <- ylabel[position]
u <- as.numeric(unclass(date.time))
u <- u - min(u)
y <- as.numeric(unclass(as.Date(as.character(x$date), format = "%Y/%m/%d")))
y <- as.numeric(levels(as.factor(as.character(y))))
y <- y - min(y)
y <- 0:max(y)
if(length(y) > 1) {
position <- 0:round(max(u) / (60 * 60 * 24))
z <- list()
for(i in 1:length(position)) {
z[i] <- list(position[i])
}
names(z) <- 60 * 60 * 24 * position
if(length(z) > 20) {
max <- length(z) + (10 - length(z)%%20)
position <- abs(floor(- length(z)/20))
if(position %% 2 != 0) {
position <- position + 1
}
position <- round(seq(1, max, position))
}
z <- z[position]
if(col == FALSE) {
g <- qplot(u, x[, var[k]], data = x, geom = "line", size = I(0.5), fill = factor(x$serie)) + geom_line(color = "blue") +
theme_classic() +
labs(x = "TIME [days]", y = ylabel) +
scale_x_continuous(breaks = as.numeric(names(z)), labels = z) +
scale_y_continuous(breaks= pretty_breaks(), limits=c(y.plot.min, y.plot.max)) +
theme(axis.text.x=element_text(size = 15), axis.text.y=element_text(size = 15)) +
theme(axis.text = element_text(size = 20), axis.title = element_text(size = 20)) +
theme(legend.position="none") +
theme(strip.text.x = element_text(size = 15), strip.text.y = element_text(size = 15))
glist[k] <- list(ggplotGrob(g))
} else {
g <- qplot(u, x[, var[k]], data = x, geom = "line", size = I(0.8), fill = factor(x$serie)) + geom_line(color = factor(x$color), size = 1) +
theme_classic() +
labs(x = "TIME [days]", y = ylabel) +
scale_x_continuous(breaks = as.numeric(names(z)), labels = z) +
scale_y_continuous(breaks= pretty_breaks(), limits=c(y.plot.min, y.plot.max)) +
theme(axis.text.x=element_text(size = 15), axis.text.y=element_text(size = 15)) +
theme(axis.text = element_text(size = 20), axis.title = element_text(size = 20)) +
theme(legend.position="none") +
theme(strip.text.x = element_text(size = 15), strip.text.y = element_text(size = 15))
glist[k] <- list(ggplotGrob(g))
}
} else {
if(max(u) >= (60 * 60)) {
position <- 0:round(max(u) / (60 * 60))
z <- list()
for(i in 1:length(position)) {
z[i] <- list(position[i])
}
names(z) <- 60 * 60 * position
if(length(z) > 20) {
max <- length(z) + (10 - length(z)%%20)
position <- abs(floor(- length(z)/20))
if(position %% 2 != 0) {
position <- position + 1
}
position <- round(seq(1, max, position))
}
z <- z[position]
g <- qplot(u, x[, var[k]], data = x, geom = "line", size = I(0.5), fill = factor(x$serie)) + geom_line(color = "blue") +
theme_classic() +
labs(x = "TIME [hours]", y = ylabel) +
scale_x_continuous(breaks = as.numeric(names(z)), labels = z) +
scale_y_continuous(breaks= pretty_breaks(), limits=c(y.plot.min, y.plot.max)) +
theme(axis.text.x=element_text(size = 15), axis.text.y=element_text(size = 15)) +
theme(axis.text = element_text(size = 20), axis.title = element_text(size = 20)) +
theme(legend.position="none") +
theme(strip.text.x = element_text(size = 15), strip.text.y = element_text(size = 15))
glist[k] <- list(ggplotGrob(g))
} else {
position <- 0:round(max(u) / (60))
z <- list()
for(i in 1:length(position)) {
z[i] <- list(position[i])
}
names(z) <- 60 * position
if(length(z) > 20) {
max <- length(z) + (10 - length(z)%%20)
position <- abs(floor(- length(z)/20))
if(position %% 2 != 0) {
position <- position + 1
}
position <- round(seq(1, max, position))
}
z <- z[position]
glist[k] <- qplot(u, x[, var[k]], data = x, geom = "line", size = I(0.5), fill = factor(x$serie)) + geom_line(color = "blue") +
theme_classic() +
labs(x = "TIME [minutes]", y = ylabel) +
scale_x_continuous(breaks = as.numeric(names(z)), labels = z) +
scale_y_continuous(breaks= pretty_breaks(), limits=c(y.plot.min, y.plot.max)) +
theme(axis.text.x=element_text(size = 15), axis.text.y=element_text(size = 15)) +
theme(axis.text = element_text(size = 20), axis.title = element_text(size = 20)) +
theme(legend.position="none") +
theme(strip.text.x = element_text(size = 15), strip.text.y = element_text(size = 15))
glist[k] <- list(ggplotGrob(g))
}
}
}
g <- grid.arrange(glist[[1]], glist[[2]], glist[[3]], glist[[4]], ncol = 2)
}
suppressWarnings(plot(g))
}
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