主要使用ggExtra结合ggplot2两个R包进行绘制。（胜在简洁方便）使用cowplot与ggpubr进行绘制。（胜在灵活且美观）
下面的绘图我们均以iris数据集为例。
1. 使用ggExtra结合ggplot2
1）传统散点图
# library
library(ggplot2)
library(ggExtra)
# classic plot
p <- ggplot(iris) +
geom_point(aes(x = Sepal.Length, y = Sepal.Width, color = Species), alpha = 0.6, shape = 16) + # alpha 调整点的透明度；shape 调整点的形状
theme_bw() +
theme(legend.position = "bottom") + # 图例置于底部
labs(x = "Sepal Length", y = "Sepal Width") # 添加x，y轴的名称
p
下面我们一行代码添加边际分布（分别以密度曲线与直方图的形式来展现）：
2）密度函数
# marginal plot: density
ggMarginal(p, type = "density", groupColour = TRUE, groupFill = TRUE)
3）直方图
# marginal plot: histogram
ggMarginal(p, type = "histogram", groupColour = TRUE, groupFill = TRUE)
4）箱线图（宽窄的显示会有些问题）
# marginal plot: boxplot
ggMarginal(p, type = "boxplot", groupColour = TRUE, groupFill = TRUE)
5）小提琴图（会有重叠，不建议使用）
# marginal plot: violin
ggMarginal(p, type = "violin", groupColour = TRUE, groupFill = TRUE)
6）密度函数与直方图同时展现
# marginal plot: densigram
ggMarginal(p, type = "densigram", groupColour = TRUE, groupFill = TRUE)
2. 使用cowplot与ggpubr
1）重绘另一种散点图
# Scatter plot colored by groups ("Species")
sp <- ggscatter(iris, x = "Sepal.Length", y = "Sepal.Width",
color = "Species", palette = "jco",
size = 3, alpha = 0.6) +
border() +
theme(legend.position = "bottom")
sp
2）有缝拼接
① 密度函数
library(cowplot)
# Marginal density plot of x (top panel) and y (right panel)
xplot <- ggdensity(iris, "Sepal.Length", fill = "Species",
palette = "jco")
yplot <- ggdensity(iris, "Sepal.Width", fill = "Species",
palette = "jco") +
rotate()
# Cleaning the plots
sp <- sp + rremove("legend")
yplot <- yplot + clean_theme() + rremove("legend")
xplot <- xplot + clean_theme() + rremove("legend")
# Arranging the plot using cowplot
plot_grid(xplot, NULL, sp, yplot, ncol = 2, align = "hv",
rel_widths = c(2, 1), rel_heights = c(1, 2))
② 未被压缩的箱线图
# Marginal boxplot of x (top panel) and y (right panel)
xplot <- ggboxplot(iris, x = "Species", y = "Sepal.Length",
color = "Species", fill = "Species", palette = "jco",
alpha = 0.5, ggtheme = theme_bw())+
rotate()
yplot <- ggboxplot(iris, x = "Species", y = "Sepal.Width",
color = "Species", fill = "Species", palette = "jco",
alpha = 0.5, ggtheme = theme_bw())
# Cleaning the plots
sp <- sp + rremove("legend")
yplot <- yplot + clean_theme() + rremove("legend")
xplot <- xplot + clean_theme() + rremove("legend")
# Arranging the plot using cowplot
plot_grid(xplot, NULL, sp, yplot, ncol = 2, align = "hv",
rel_widths = c(2, 1), rel_heights = c(1, 2))
3）无缝拼接
# Main plot
pmain <- ggplot(iris, aes(x = Sepal.Length, y = Sepal.Width, color = Species)) +
geom_point() +
color_palette("jco")
# Marginal densities along x axis
xdens <- axis_canvas(pmain, axis = "x") +
geom_density(data = iris, aes(x = Sepal.Length, fill = Species),
alpha = 0.7, size = 0.2) +
fill_palette("jco")
# Marginal densities along y axis
# Need to set coord_flip = TRUE, if you plan to use coord_flip()
ydens <- axis_canvas(pmain, axis = "y", coord_flip = TRUE) +
geom_density(data = iris, aes(x = Sepal.Width, fill = Species),
alpha = 0.7, size = 0.2) +
coord_flip() +
fill_palette("jco")
p1 <- insert_xaxis_grob(pmain, xdens, grid::unit(.2, "null"), position = "top")
p2 <- insert_yaxis_grob(p1, ydens, grid::unit(.2, "null"), position = "right")
ggdraw(p2)
参考
Articles - ggpubr: Publication Ready Plots——Perfect Scatter Plots with Correlation and Marginal Histograms
Marginal distribution with ggplot2 and ggExtra
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