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To further quantify the level of module preservation, a matrix comparison procedure was used.
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Thus, there is no simple relationship between matrix similarities measured by CPCA and other matrix comparison procedures [ 27].
Thus there may be considerable similarity between the two matrices, but this similarity is overlooked by the comparison procedure which finds the paired eigenvectors very different.
The rationale for the comparison procedure is that, when the covariance matrices of two data samples are similar, the eigenvectors obtained in a principal component analysis of any of them will explain similar amounts of variation in both samples.
Table 1 summarizes the results of multiple comparison procedure.
The comparison procedure was conducted in three steps.
Bar color based on Dunnett's multiple comparison procedure.
This suggests that other aspects of covariance matrix structure might control the degree of agreement between different comparison procedures.
In this method, ratio matrix comparisons were created.
The false discovery rate (FDR) of the procedure was estimated by adjusting the p-values resulting from the permutations for the number of hypotheses tested, i.e. 15 matrix comparisons.
We thus only present matrix comparisons for hermaphrodites.
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