我正在使用 identify 来探索 R 中树状图中集群的特定特征。通过使用“hclust”对象,Identify 工作得非常好,但我需要它用于类“dendrogram”而不是“hclust”的水平树状图。我安装了包dendextend,它通常应该将识别功能扩展到类树状图的对象和水平树状图( http://rpackages.ianhowson.com/cran/dendextend/man/identify.dendrogram.html)。对于我的特定数据集,识别适用于垂直树状图(类树状图),但不适用于水平树状图。我总是得到的错误是:
Error in rect.dendrogram(x, k = k, x = X$x, cluster = cluster[, k - 1], :
k must be between 2 and 10
请在此处找到一个可重现且简化的示例:
#Install packages
install.packages(c("TraMineR","dendextend"))
#Load packages
library(TraMineR)
library(dendextend)
#Create fake dataset (each row is a sequence of characters)
a <- c(rep('A',50), rep('B',50))
seqdf <- rbind(a=a, b=sample(a), c=sample(a), d=sample(a), e=sample(a), f=sample(a),g=sample(a),h=sample(a),
i=sample(a), j=rep('A',100),k=rep('B',100),l=sample(a))
colnames(seqdf)<- paste(rep('a',100),c(1:100),sep='')
#Turn it into a sequence object
seq_def <- seqdef(seqdf, 1:100, id = rownames(seqdf), xtstep = 4)
#Calculate the dissimilarity (hamming distance) between sequences
hd <- seqdist(seq_def, method = "HAM", with.missing = TRUE)
rows<-list(rownames(seqdf),rownames(seqdf))
dimnames(hd) <- rows
#Perform Ward clustering on dissimilarity matrix hd
ward <- hclust(as.dist(hd), method = "ward.D2")
#Dendrogram object
dend <- as.dendrogram(ward)
#Horizontal dendrogram
plot(dend, horiz=TRUE)
identify(dend, horiz=TRUE) # HERE IDENTIFY GIVES AN ERROR
#Vertical dendrogram
plot(dend)
identify(dend) # this works, there is no error
希望有人知道如何解决这个问题。
最好的,