exampleArrayData


	This dataset provides simulated association p-values for an example set of SNP rsIDs, including their chromosome and position along the chromosome. The data in this file are all SNPs that lie on chromosome 1.


datasets

Gene set analysis methods exist to combine SNP-level
association p-values into gene sets, calculating a single
association p-value for each gene set. This package implements
two such methods that require only the calculated SNP p-values,
the gene set(s) of interest, and a correlation matrix (if
desired). One method (GLOSSI) requires independent SNPs and the
other (VEGAS) can take into account correlation (LD) among the
SNPs. Built-in plotting functions are available to help users
visualize results.

Caitlin McHugh

cpvSNP

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

exampleArrayData function

A data.frame containing 119,487 rows and the following 4 columns:
<table><tr><td>
	P    </td>
</tr><tr><td> simulated p-values</td>
</tr><tr><td>
	SNP  </td>
</tr><tr><td> SNP rsIDs</td>
</tr><tr><td>
	Position </td>
</tr><tr><td> SNP position</td>
</tr></table>

Format

This dataset provides simulated association p-values for an example set of SNP rsIDs, including their chromosome and position along the chromosome. The data in this file are all SNPs that lie on chromosome 1.

exampleArrayData: SNP Array Data to Use for Gene Set Analysis

Description

Usage

Arguments

Format