why pvclust is not identifying significant clusters?
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6.6 years ago

Dear all good evening

i am making bootstrap dendrogram in R and goal is to identify siginificant clusters out of tree with PVCLUST package. I am getting only two major clusters and not getting significant subclusters eventhough AU/BP values are greater than 95. can any one help me to find out where it ent wrong in this code and with data. here i am sahring my tree pic, data and code i used. tree https://www.dropbox.com/s/pgsg4k8e491d2pw/PVLCUST%20TREE.jpeg?dl=0 data https://www.dropbox.com/s/0wpxkri3yyk5bze/GPdist1.csv?dl=0 code https://www.dropbox.com/s/xnbcx89aicbtz7h/code.txt?dl=0 any help in this regard will be highly appreciated\thanks in advance

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What is the data ? It looks like a distance matrix. If so, pass the original data to pvclust, not the distance matrix since pvclust will compute the distance defined by the argument method.dist. Also note that pvclust clusters the columns of its input data.

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