generateExprVal.method.playerout: Generate an expression value from the probes informations

In Bioconductor/affy: Methods for Affymetrix Oligonucleotide Arrays

Generate an expression value from the probes informations

Description

Generate an expression from the probes

Usage

  generateExprVal.method.playerout(probes, weights=FALSE, optim.method="L-BFGS-B")

Arguments

probes	a list of probes slots from PPSet.container
weights	Should the resulting weights be returned ?
optim.method	see parameter 'optim' for the function optim

Details

A non-parametric method to weight each perfect match probe in the set and to compute a weighted mean of the perfect match values. One will notice this method only makes use of the perfect matches. (see function playerout.costfunction for the cost function).

Value

A vector of expression values.

Author(s)

Laurent <[e-mail]>
(Thanks to E. Lazaridris for the original playerout code and the discussions about it)

References

Emmanuel N. Lazaridis, Dominic Sinibaldi, Gregory Bloom, Shrikant Mane and Richard Jove A simple method to improve probe set estimates from oligonucleotide arrays, Mathematical Biosciences, Volume 176, Issue 1, March 2002, Pages 53-58

Bioconductor/affy documentation built on July 21, 2023, 5:23 p.m.