Sentence examples for between arrays using the from inspiring English sources

The resulting median foreground values for the red and green channels were normalized in two steps using the LIMMA package in R as follows: "within arrays" using the LOWESS method and "between arrays" using the quartile method.

All arrays were quantile normalized to remove non-biological variation between arrays using the Robust Multi-chip Averaging (RMA) algorithm [59].

Raw image data were global loess-normalized within arrays and normalized between arrays using the LIMMA package [ 53].

The Bioconductor package CGHnormaliter [ 34] was then used to correct for intensity dependence and log2 ratios scaled to be comparable between arrays using the 'scale' method in the package limma [ 35].

The "normexp" method [ 33] was used for background correction, followed by normalization within individual microarrays using the default "print tip loess" method and normalization between arrays using the "quantile" method.

The resulting median foreground values for the red and green channels were normalized in two steps using the limma package [ 73] in R: "within arrays" using the lowess method and "Between arrays" using the quartile method.

Average intensities were normalized between-arrays using the Aquantile method.

Homologs were mapped between the two arrays using the Homologene database (build 58).

Given the assumption that the log-ratio distributional differences were not associated with tissue type, the data were scale normalized between arrays using quantile normalization of the log-ratios (rather than a robust scale normalization, such as MAD scaling).

Data was read into R and normalized within arrays using median normalization and between arrays using Aquantile normalization from the Limma package [56].

Outlier removal was carried out based on a correlation matrix generated from all possible pairwise comparisons between arrays using Pearson's product-moment correlation coefficient as the metric.