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[英]Error when using calibrate function for ols model fitted in rms package
[英]Contour plot using bplot function in rms package
我一直试图基于“ rms”包中的bplot函数,为带有R的预测模型绘制轮廓图。 代码如下:
library(rms)
n <- 1000
set.seed(17)
age <- rnorm(n, 50, 10)
blood.pressure <- rnorm(n, 120, 15)
cholesterol <- rnorm(n, 200, 25)
sex <- factor(sample(c('female','male'), n,TRUE))
L <- .4*(sex=='male') + .045*(age-50) + (log(cholesterol - 10)-5.2)*(-2*(sex=='female') + 2*(sex=='male'))
y <- ifelse(runif(n) < plogis(L), 1, 0)
ddist <- datadist(age, blood.pressure, cholesterol, sex)
options(datadist='ddist')
fit <- lrm(y ~ blood.pressure + sex * (age + rcs(cholesterol,4)), x=TRUE, y=TRUE)
p <- Predict(fit, age, cholesterol, sex, np=50)
bplot(p,, contourplot, region = TRUE,col.regions=topo.colors)
我注意到输出图是这样的:
我找不到如何平滑两个填充区域之间的锯齿形边界线的方法,所以我想知道是否可以使用ggplot2制作这种用于预测模型的等高线图,或者是否有其他解决方案来平滑锯齿形边界线。
您可以结合使用geom_tile
和geom_contour
绘制相似的图。
library(ggplot2)
ggplot(data.frame(p), aes(age, cholesterol, fill = yhat, z = yhat)) +
geom_tile() +
geom_contour(color = "black") +
scale_fill_distiller(palette = "Spectral", limits = c(-2, 2)) +
labs(x = "Age",
y = expression(Total~Cholesterol["mg/dl"]),
fill = NULL) +
facet_grid(~ sex) +
theme_classic()
编辑:根据OP的要求,我添加了离散的颜色:
ggplot(data.frame(p), aes(age, cholesterol, z = yhat)) +
geom_tile(aes(fill = factor(round(yhat)))) +
geom_contour(color = "black") +
labs(x = "Age",
y = expression(Total~Cholesterol["mg/dl"]),
fill = NULL) +
facet_grid(~ sex) +
theme_classic()
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