gr.normalize normalizes a matrix of gene expression data
as part of the implementation of the Gene Recommender algorithm
described in Owen et al (2003). gr.normalize must be applied
to the data before running gr.main.
Usage
gr.normalize(unnormalized.dataset)
Arguments
unnormalized.dataset
A matrix or ExpressionSet containing the normalized gene expression data.
The rows correspond to genes, the columns correspond to experiments, and the
entries correspond to the gene expression levels. The rows must be labeled.
Value
The normalized gene expression data, in the same format as the input.
Details
gr.normalize normalizes the data so that for each gene, the
gene expression measurements are distributed uniformly between
-1 and 1.
References
Art B. Owen, Josh Stuart, Kathy Mach, Anne M. Villeneuve, and Stuart Kim.
A Gene Recommender Algorithm to Identify Coexpressed Genes in C. elegans.
Genome Research 13:1828-1837, 2003.
#This example uses the geneData dataset from the Biobase packagedata(geneData)
my.query <- c("31730_at", "31331_at", "31712_at", "31441_at")
normalized.data <- gr.normalize(geneData)