xPierEvidenceR Documentation

Function to extract evidence from a list of pNode objects

Description

xPierEvidence is supposed to extract evidence from a list of pNode objects, in terms of seed genes under genetic influence.

Usage

xPierEvidence(list_pNode, target.query = NULL, verbose = TRUE)

Arguments

list_pNode

a list of "pNode" objects or a "pNode" object

target.query

which gene is in query. If NULL, all genes will be queried

verbose

logical to indicate whether the messages will be displayed in the screen. By default, it sets to true for display

Value

a data frame of nPair X 5 containing Gene-SNP pair info per context, where the 6 columns are "Gene" (seed genes), "SNP" (dbSNP), "Score" (an SNP's genetic influential score on a seed gene), "Context" (predictors), "Flag" (indicative of Lead SNPs or LD SNPs), and "Pval" (the SNP p-value)

Note

none

See Also

xPierSNPsAdv

Examples

## Not run: 
# Load the library
library(Pi)

## End(Not run)
RData.location <- "http://galahad.well.ox.ac.uk/bigdata_dev"
## Not run: 
df_Gene2SNP <- xPierEvidence(ls_pNode)

## End(Not run)