Assigns SNPs to pathways

Description

Assigns SNPs to pathways, using the pathway gene members and the SNPs assigned to each gene.

Usage

snps.to.pathways(pathways,gene.snps)

Arguments

Value

A list of the same size as the number of pathways in the pathway list. The names of the SNPs assigned to each pathway are returned. Empty pathways are also returned.

See Also

SNPs, genes, snps.to.genes

Examples

data(SNPs)
data(genes)
data(pathways)
snps.genes <- snps.to.genes(snp.info=SNPs,gene.info=genes, distance=50)
pathway.snps <- snps.to.pathways(pathways,snps.genes)

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

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> library(PAGWAS)
Loading required package: lars
Loaded lars 1.2

Loading required package: foreach
Loading required package: mnormt
> png(filename="/home/ddbj/snapshot/RGM3/R_CC/result/PAGWAS/snps.to.pathways.Rd_%03d_medium.png", width=480, height=480)
> ### Name: snps.to.pathways
> ### Title: Assigns SNPs to pathways
> ### Aliases: snps.to.pathways
> 
> ### ** Examples
> 
> data(SNPs)
> data(genes)
> data(pathways)
> snps.genes <- snps.to.genes(snp.info=SNPs,gene.info=genes, distance=50)
> pathway.snps <- snps.to.pathways(pathways,snps.genes)
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>