Question: Height Of The Hcluster Dendrogram In R
1
gravatar for Shuixia100
6.2 years ago by
Shuixia100100
HK
Shuixia100100 wrote:

Hi there,

when I tried to do hcluster in R While I am expecting some dissimilarity value of 0 to 1 in the height, I got a Dendrogram like below! Could any one help explain the height in the dendrogram. And how could i get dissimilarity value of 0 to 1 in hcluster of R

hcluster Denrogram

THX in advance, Kylie

R • 4.3k views
ADD COMMENTlink modified 6 months ago by Biostar ♦♦ 20 • written 6.2 years ago by Shuixia100100
0
gravatar for Thaman
6.2 years ago by
Thaman3.2k
Finland
Thaman3.2k wrote:

I think this should work

plot(hclust(d), hang=1, labels=groups)

ADD COMMENTlink written 6.2 years ago by Thaman3.2k

Not working, I thought hang is to control the height between label and the tree but not the height of the Dendrogram

ADD REPLYlink written 6.2 years ago by Shuixia100100
0
gravatar for Kevin Blighe
12 months ago by
Kevin Blighe30k
Kevin Blighe30k wrote:

My guess is that you have used the default distance metrix of Euclidean distance, which are on a scale that go beyond 0 to 1.

If you re-do the dendrogram with Pearson correlation values, then you should see a tree height of just 0 to 1. To do this, you have to create your own function, something like this: function(x) 1-cor(t(x))

ADD COMMENTlink written 12 months ago by Kevin Blighe30k
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