根据标签重新排序和颜色树形图

Question

我试图控制树状图的顺序和颜色。显然，dendorgram的要点是按相似性排序，但在分支内我想设置一个有意义的顺序（字母数字）。

library(vegan)
library(stats) 

x <-data.frame(data = c(1:10)) 
y = data.frame(type = c("A","B","C","A","C","D","A","B","C","B"), site_name = c("A1","B1","C1","A2","C2","D1","A3","B2","C3","B3"))  
row.names(x) = y$site_name 
dis = vegdist(x) 
hc <- hclust(dis) 
dd <- as.dendrogram(hc) 
plot(dd)

我的数据标签是文字，但它们确实有变量

中列出的设定顺序

site_order = c("A1","A2","A3","B1","B2","B3","C1","C2","C3","D1")

1）我想找到一个解决方案，根据分支内的site_order对树形图进行排序。

  

e.g。 A1，B1，A2，C1，C2，D2，A3，B2，B3，C3

我还想使用site_type为标签着色和整形 例如（A =红色圆圈，B =蓝色方形，C =绿色三角形，D =黄色十字形）

这可能吗？

Answer 1

这是使用dendextend中的rotate函数最好的工作。

library(vegan)
library(stats) 

x <-data.frame(data = c(1:10)) 
y = data.frame(type = c("A","B","C","A","C","D","A","B","C","B"), site_name = c("A1","B1","C1","A2","C2","D1","A3","B2","C3","B3"))  
row.names(x) = y$site_name 
dis = vegdist(x) 
hc <- hclust(dis) 
dd <- as.dendrogram(hc) 

par(mfrow = c(1,2))
plot(dd, main = "orig")

library(dendextend)
dd2 <- rotate(dd, sort(labels(dd)) )
plot(dd2, main = "as sorted as possible \n(under the constraints)")

输出：

您可以从the online vignettes了解有关dendextend软件包的更多信息。