How can I get the values for the distances between samples in a HCA

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Rafael Freire 2015-8-27

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https://ww2.mathworks.cn/matlabcentral/answers/237049-how-can-i-get-the-values-for-the-distances-between-samples-in-a-hca

评论： Rafael Freire 2015-8-27

Let´s consider we have the folowing HCA

data =  randi(1000,10,30);
HCA_Number_of_Clusters=3;
dist = pdist(data, 'euclidean');
link = linkage(dist, 'ward');
clust = cluster(link, 'maxclust', HCA_Number_of_Clusters);
color = link(end-HCA_Number_of_Clusters+2,3)-eps;
for i=1:size(data,1)
    names{i,1}=num2str(i);
end
figure,
[H, T, outperm]=dendrogram(link , 0,'labels',names , 'colorthreshold', color);

How can I get the values for the distances between samples. It can be a matrix with the distances between all samples or a vector with distance values for a specified sample for example sample 5. Thank you

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Rafael Freire 2015-8-27

How to create a vector with the distances from sample 1? like Sample 1 distance from Sample 1 is 0 Sample 1 distance from Sample 2 is 1800 Sample 1 distance from Sample 6 is 1800 Sample 1 distance from Sample 4 is 2400 Sample 1 distance from Sample 7 is 2400 and on...

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