plotPvals

An object of class <code>GeneSetResultCollection</code>.

A character string containing the title of the plot.
Default is "", a blank title.

title

A character vector with the label for the x-axis on
the plot. Default is <code>SNPs per Gene Set</code>.

xlab

A character vector holding the label for the y-axis
on the plot. Default is <code>PValue</code>.

ylab

Further arguments to be passed to the plotting methods,
such as graphical parameters.


Plots association test p-values against number of SNPs per
gene set.


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

plotPvals function

Plots association test p-values against number of SNPs per
gene set.

plotPvals: Create a Plot of P-Values Against Number of SNPs per Set for All Sets in a Collection

Description

Usage

Arguments

Value

Details