Hierarchical clustering with similarity matrix
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Hi there,
I have a similarity matrix that I would like to use as the input of the function linkage. However, this takes as an input only the a dissimilarity/distance matrix. Do you know any way by which I can manage to run a hierarchical clustering in Matlab using my similarity matrix?
Cheers!
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Akanksha Shrimal
2022 年 4 月 26 日
Hi,
It is my understanding that you want to compute Hierarchical Clustering with ‘linkage’ function in MATLAB using a similarity matrix.
The ‘linkage’ function in MATLAB takes input as distance vector to compute clusters.
Given a similarity matrix s, we can compute the dissimilarity matrix of s by
ds = 1 – s
This dissimilarity matrix is then converted into a vector form that 'linkage' accepts using 'squareform'.
X = squareform(ds)
Now you can apply 'linkage' with X using ‘complete’ method for calculating distance between clusters.
Z = linkage(X,’complete’)
Hope this helps.
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