GSReg-package: A package for Gene Set Analysis based on the variability of gene expression in different phenotypes.
Description
The GSReg package applies the analysis of variance among phenotypes for each gene set. Specially, the user can use Differential Rank Conservation (DIRAC) (Eddy et al. 2010)
and a modified version which allows for efficient and easy p value calculation. Both DIRAC and its modified version are rank-based methods, i.e. they only consider the ordering of the expressions
within the pathway.
Arguments
GSReg package features
The package contains several utilities enabling to:
A) Prune Gene Sets based on the available genes in the expression data; B) Calculate the DIRAC measure and p-value for it based on permutation test; C) Calculate for a modified DIRAC method and a fast-efficient p-valuebased on U-Statistic theory;