antisenseThetaA {oligo}R Documentation

Summarized Measures for SNP

Description

SNPRMA summarizes the intensities for each SNP into 4 quantities. These measures are at the log2 scale and are used to create log-ratios and log-averages, which are used by the genotype algorithm and copy number tool.

Usage

antisenseThetaA(object)
antisenseThetaB(object)
senseThetaA(object)
senseThetaB(object)

Arguments

object SnpQSet object

Details

For a given SNP, an Affymetrix SNP array usually contains multiple features for each combination allele x strand, on which the summaries are computed.

Value

A matrix with R rows (SNP's) x C columns (Samples).

See Also

snprma, crlmm


[Package oligo version 1.6.0 Index]