Gene set analysis methods exist to combine SNPlevel association pvalues into gene sets, calculating a single association pvalue for each gene set. This package implements two such methods that require only the calculated SNP pvalues, 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. Builtin plotting functions are available to help users visualize results.
Package details 


Author  Caitlin McHugh, Jessica Larson, and Jason Hackney 
Bioconductor views  GeneSetEnrichment Genetics GenomicVariation Pathways StatisticalMethod 
Maintainer  Caitlin McHugh <mchughc@uw.edu> 
License  Artistic2.0 
Version  1.22.0 
Package repository  View on Bioconductor 
Installation 
Install the latest version of this package by entering the following in R:

Any scripts or data that you put into this service are public.
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.