xis a matrix, then the result is a matrix of the same size. If
EListRawobject, then an
EListobject with expression values on the log2 scale is produced. For
RGList, then an
MAListobject with M and A-values on the log2 scale is produced.
vsnMatrixfunction from the vsn package. The input
xshould contain raw intensities. If
xcontains background and well as foreground intensities, these will be subtracted from the foreground intensities before
Note that the vsn algorithm performs background correction and normalization simultaneously. If the data are from two-color microarrays, then the red and green intensities are treated as if they were single channel data, i.e., red and green channels from the same array are treated as unpaired. This algorithm is therefore separate from the backgroundCorrection, normalizeWithinArrays, then normalizeBetweenArrays paradigm used elsewhere in the limma package.