Hi Berk, Indeed, when I say that the overlap is below 0.4 I mean the highest values of the matrix of inner products. I expected the vectors to be quite similar with their neighbours, i.e. I expected vector 5 to have a high inner product with 5, or 4 or 6 of the other set. But this diagonal trend, although present, is very weak, and is in fact more present for the lower pc that the higher! A part from the cosine content, we have checked the projections of the trajectory, and except for the 1st and 2nd pc's, the other exhaustively oscillate around the mean value, which I though indicated good sampling. Otherwise, how can I asses if the PCA makes any sense? (there are papers that do PCA with shorter trajectories...) Thanks! Ramon
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