selectedChannelTransformSingleArray

List of beadLevelData objects (or single object).

NULL for performing on 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

channelTransformFrom

Result channel, if this channel exists it will be overwritten.

channelResult

Function of input data trasformation, default is NULL. Any function which for input value returns transformed value may be supplied. T-test then will be evaluated on transformed data, consider use log2TranformPositive.

transformation

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.

selectedChannelTransformSingleArray: Channel transformation

Description

Usage

Arguments