nonPositiveCorrectSingleArray

List of beadLevelData objects (or single object).

NULL for normalization of all input b. Otherwise specifies logical vector of the length equals to the number of arrays in b or list of such vectors if b is a list of beadLevelData classes.

normalizationMod

channelCorrect

Filtered beads will have weight 0 and non filtered weight 1.

channelBackgroundFilter

Represents vector to bitvise multiple to the channelBackgroundFilter vector.

channelAndVector

INTERNAL FUNCTION Correction for positive values only

Package blima includes several algorithms for the preprocessing of Illumina microarray data. It focuses to the bead level analysis and provides novel approach to the quantile normalization of the vectors of unequal lengths. It provides variety of the methods for background correction including background subtraction, RMA like convolution and background outlier removal. It also implements variance stabilizing transformation on the bead level. There are also implemented methods for data summarization. It also provides the methods for performing T-tests on the detector (bead) level and on the probe level for differential expression testing.

nonPositiveCorrectSingleArray: Correct non positive

Description

Usage

Arguments