xieBacgroundCorrectSingleArray: INTERNAL FUNCTION Xie background correct.

In blima: Tools for the preprocessing and analysis of the Illumina microarrays on the detector (bead) level

Description

INTERNAL This function is not intended for direct use. Background correction according to non parametric estimator in Xie, Yang, Xinlei Wang, and Michael Story. "Statistical Methods of Background Correction for Illumina BeadArray Data." Bioinformatics 25, no. 6 (March 15, 2009): 751-57. doi:10.1093/bioinformatics/btp040. The method is applied on the bead level.

Usage

xieBacgroundCorrectSingleArray(b, normalizationMod = NULL, negativeArrayAddresses, 
    channelCorrect, channelResult, channelInclude = NULL)

Arguments

b	Single beadLevelData object.
normalizationMod	NULL for processing all spots in b. Otherwise specifies logical vector of the length equals to the number of arrays in b.
negativeArrayAddresses	Vector of addresses of negative control probes on array
channelCorrect	Slot to perform convolution correction.
channelResult	Result channel, if this channel exists it will be overwritten.
channelInclude	This field allows user to set channel with weights which have to be from 0,1. All zero weighted items are excluded from summarization. You can turn this off by setting this NULL. This option may be used together with bacgroundCorrect method or/and with beadarray QC (defaults to NULL).

Author(s)

Vojt<c4><9b>ch Kulvait

blima documentation built on Nov. 8, 2020, 8:15 p.m.