R语言ggplot2每周一图活动第五周：箱线图、小提琴图

用户7010445

发布于 2022-05-23 15:57:37

6290

发布于 2022-05-23 15:57:37

在之前提到的tidytuesday里没有找到关于箱线图和小提琴图比较好的实例，这周的ggplot2每周一图活动用之前推文中的内容作为实例进行讲解，之前的推文是跟着Nature学作图：R语言ggplot2箱线图、小提琴图、抖动散点图

作图代码

dfToPlot<-read.csv("dfToPlot.csv")
head(dfToPlot)
dfToPlot$RELATIONSHIP.0 <- factor(dfToPlot$RELATIONSHIP.0,
                                  levels=c("RND.PAIR","PARTNERS","PARENT_CHILD","SIBLINGS"))
library(ggplot2)
ggplot(data=dfToPlot,aes(x=RELATIONSHIP.0,
                         y=BC_Spec,
                         color=RELATIONSHIP.0))+
  geom_boxplot() -> p1

p1

ggplot(data=dfToPlot,aes(x=RELATIONSHIP.0,
                         y=BC_Spec,
                         color=RELATIONSHIP.0))+
  geom_jitter() -> p2
p2

ggplot(data=dfToPlot,aes(x=RELATIONSHIP.0,
                         y=BC_Spec,
                         color=RELATIONSHIP.0))+
  geom_violin() -> p3
p3

library(patchwork)
p1+p2+p3+
  plot_layout(guides = "collect")


cbPalette <- c("#E69F00", "#CC79A7", "#56B4E9", "#009E73", "#CC79A7", "#F0E442", "#999999","#0072B2","#D55E00")
ggplot(data=dfToPlot,aes(x=RELATIONSHIP.0,
                         y=BC_Spec,
                         color=RELATIONSHIP.0))+
  geom_jitter(alpha=0.2,
              position=position_jitterdodge(jitter.width = 0.35, 
                                            jitter.height = 0, 
                                            dodge.width = 0.8))+
  geom_boxplot(alpha=0.2,width=0.45,
               position=position_dodge(width=0.8),
               size=0.75,outlier.colour = NA)+
  geom_violin(alpha=0.2,width=0.9,
              position=position_dodge(width=0.8),
              size=0.75)+
  scale_color_manual(values = cbPalette)+
  theme_classic() +
  theme(legend.position="none") + 
  theme(text = element_text(size=16)) + 
  #ylim(0.0,1.3)+
  ylab("Bray-Curtis distance of Species")

ggplot(data=dfToPlot,aes(x=RELATIONSHIP.0,
                         y=BC_Spec,
                         color=RELATIONSHIP.0))+
  geom_jitter(alpha=0.2,
              position=position_jitterdodge(jitter.width = 0.35, 
                                            jitter.height = 0, 
                                            dodge.width = 0.8))+
  geom_boxplot(alpha=0.2,width=0.45,
               position=position_dodge(width=0.8),
               size=0.75,outlier.colour = NA)+
  geom_violin(alpha=0.2,width=0.9,
              position=position_dodge(width=0.8),
              size=0.75)+
  scale_color_manual(values = cbPalette)+
  theme_classic() +
  theme(legend.position="none") + 
  theme(text = element_text(size=16)) + 
  #ylim(0.0,1.3)+
  ylab("Bray-Curtis distance of Species")+
  #scale_x_discrete(labels=c("A","B","C","D"))+
  annotate("segment", x = 1-0.01, y = 1, xend = 2.01,lineend = "round", 
           yend = 1,size=1,colour="black",arrow = arrow(length = unit(0.02, "npc")))+
  annotate("segment", x = 2.01, y = 1, xend = 0.99,lineend = "round", 
           yend = 1,size=1,colour="black",arrow = arrow(length = unit(0.02, "npc")))+
  annotate("text", x=1.5,y=1.01, 
           label=expression("**"~"FDR"~2.41%*%10^-10),vjust=0) -> p4
p4

p4+p4+scale_color_manual(values = cbPalette[5:8])

最终结果