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Dec 11, 2017 at 11:20 comment added amoeba You are doing everything correctly. The sign of PCA components is arbitrary, see stats.stackexchange.com/questions/88880. The same remains true for the ACPS components. What you have in your ACPS matrix is that the first column is all positive but the second column is all negative. You can simply flip the sign of the second component if you want to have all positive values in your matrix. (CC to @ttnphns)
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