glossiMarginal: Calculate a Chi-squared Statistic and P-Value for Items in a...

In cpvSNP: Gene set analysis methods for SNP association p-values that lie in genes in given gene sets

Description

A helper function to calculate the chi-squared statistic corresponding to an observed set of p-values.

Usage

glossiMarginal(pval, set)

Arguments

pval	A vector of p-values of length equal to the number of geneIds in the GeneSetCollection object.
set	An element of a GeneSetCollection object.

Details

This function calculates a chi-squared statistic from a set of pvalues.

Value

An object of type GLOSSIResult.

Author(s)

Jason Hackney, Jessica Larson

Examples

    set.seed(30)
    pvals <- runif(100)
    names(pvals) <- paste0("rs", 1:100)
    snpGS5 <- GeneSet(geneIds=names(pvals)[1:5], setName="set5")
    res <- glossiMarginal (pvals, snpGS5)

cpvSNP documentation built on Nov. 8, 2020, 6 p.m.