Hello everyone,


I'm carrying out some hierarchical clustering of microarray data and have
been using pvclust to check the robustness of the resultant dendrogram.
According to the pvclust documentation, the AU value (approximate unbiased)
is a better indicator of p-value than the BP (bootstrap probability) value.

I am getting very good AU values (98%) at some branches, but some of these
branches have a low accompanying BP value (46%). I am unsure how to
interpret this. Does the high AU value mean that the lower BP value can be
ignored, or is there something subtle that I have not understood. The
standard errors are uniformly low after 10000 bootstraps.

I would be grateful for any help you might be able to offer.

Best wishes,


Ed

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