xPierEvidence: Function to extract evidence from a list of pNode objects

Description Usage Arguments Value Note See Also Examples

View source: R/xPierEvidence.r

Description

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

Usage

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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

xPierEvidence

Examples

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

## End(Not run)

Pi documentation built on Nov. 29, 2021, 3 p.m.