如何更改群集中每个组的树状图颜色

Question

这是我的数据

df<- structure(list(name = structure(c(2L, 12L, 1L, 16L, 14L, 10L, 
9L, 5L, 15L, 4L, 8L, 13L, 7L, 6L, 3L, 11L), .Label = c("All", 
"Bab", "boro", "bra", "charli", "delta", "few", "hora", "Howe", 
"ist", "kind", "Kiss", "myr", "No", "TT", "where"), class = "factor"), 
    value = c(1.251, -1.018, -1.074, -1.137, 1.018, 1.293, 1.022, 
    -1.008, 1.022, 1.252, -1.005, 1.694, -1.068, 1.396, 1.646, 
    1.016)), .Names = c("name", "value"), class = "data.frame", row.names = c(NA, 
-16L))

我在这里做什么

d <- dist(as.matrix(df$value),method = "euclidean")
#compute cluster membership
hcn <- hclust(d,method = "ward.D2")
plot(hcn)

它给了我我想要的如下

这里所有的组都用黑色表示，树状图不清楚我要改变每组的颜色，还用垂直的名字代替数字，最后我希望能消除hclust（ 。 “ ward.D2“），同时根据需要更改x标签和y标签

Answer 1

您可以使用针对以下任务的dendextend软件包：

# install the package:

如果（！require（'dendextend'））install.packages（'dendextend'）; 库（ 'dendextend'）

## Example:
dend <- as.dendrogram(hclust(dist(USArrests), "ave"))
d1=color_branches(dend,k=5, col = c(3,1,1,4,1))
plot(d1) # selective coloring of branches :)
d2=color_branches(d1,k=5) # auto-coloring 5 clusters of branches.
plot(d2)
# More examples are in ?color_branches

在以下URL的“用法”部分中，您可以在该包的演示文稿和小插图中看到许多示例： https : //github.com/talgalili/dendextend

或者，您也可以使用：

您应该使用dendrapply。

例如：

# Generate data
set.seed(12345)
desc.1 <- c(rnorm(10, 0, 1), rnorm(20, 10, 4))
desc.2 <- c(rnorm(5, 20, .5), rnorm(5, 5, 1.5), rnorm(20, 10, 2))
desc.3 <- c(rnorm(10, 3, .1), rnorm(15, 6, .2), rnorm(5, 5, .3))

data <- cbind(desc.1, desc.2, desc.3)

# Create dendrogram
d <- dist(data) 
hc <- as.dendrogram(hclust(d))

# Function to color branches
colbranches <- function(n, col)
  {
  a <- attributes(n) # Find the attributes of current node
  # Color edges with requested color
  attr(n, "edgePar") <- c(a$edgePar, list(col=col, lwd=2))
  n # Don't forget to return the node!
  }

# Color the first sub-branch of the first branch in red,
# the second sub-branch in orange and the second branch in blue
hc[[1]][[1]] = dendrapply(hc[[1]][[1]], colbranches, "red")
hc[[1]][[2]] = dendrapply(hc[[1]][[2]], colbranches, "orange")
hc[[2]] = dendrapply(hc[[2]], colbranches, "blue")

# Plot
plot(hc)

我从以下信息获得此信息： 如何创建带有彩色分支的树状图？

Answer 2

我们可以在组周围绘制矩形 ，假设有5个组（ k = 5 ）：

# plot dendogram
plot(hcn)

# then draw dendogram with red borders around the 5 clusters 
rect.hclust(hcn, k = 5, border = "red")

---

编辑：

删除x轴标签，并添加名称而不是数字：

plot(hcn, xlab = NA, sub = NA, labels = df$name)
rect.hclust(hcn, k = 5, border = "red")