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I have a dataset containing 400 variables (chemical compounds, amount classes) with values 0,1,2, or 3 and 50 entries (species).

Can I use hierarchical cluster analysis to get a dendrogram that shows similarities between different entries? There are a lot of 0's, about 80 % or more, in the dataset.

Which package in R you recommend? The one I tried uses only numerical variables.

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HAC needs a dissimilarity matrix.

Compute the matrix as required for your application, e g., using rank correlation.

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