Computation of correlations and permutation-based p-values for detecting quality-associated batch effects.
HumanMethylation450K dataset as an object of type
Coordinates of the samples of
Matrix of sample index permutations, as returned by
NULL if no principal components for batch analysis are specified (
rnb.getOption("exploratory.principal.components") == 0); otherwise, a hierarchical structure of
matrices in the form of a nested list. The root branches are represented by the elements
"pvalues". Every element is a list of control probe types; each type is in
turn a list of up to two matrices of correlations between probe values and principal components - one for the
probes on the green channel and one for the red channel. Note that the
"pvalues" branch is not
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