URG_getFactor {Corbi}R Documentation

Calculate normalization factors for URG method

Description

Calculate the normalization factor for each sample by using URG (uniform ratio graph) method.

Usage

URG_getFactor(expr.matrix, p.edge = 0.25, p.gene = 0.4, log.expr = FALSE)

Arguments

expr.matrix

The expression matrix. Each row represents a gene and each column represents a sample.

p.edge

The percentage of gene pairs that are selected into the uniform ratio graph.

p.gene

The maximal percentage of genes that are selected as the stable genes.

log.expr

Logical variable indicating whether the input expression matrix is in logarithmic scale.

Value

This function will return a numeric vector with each element [i] represents the normalization factor of sample (i).

References

Xinhan Ye, Ling-Yun Wu. URG: a new normalization method for gene expression data based on graph model. Manuscript.

See Also

URG_normalize


[Package Corbi version 0.6-1 Index]