getSignificantSNPs: Extract significant SNPs from an object of class...

getSignificantSNPsR Documentation

Extract significant SNPs from an object of class 'WGassociation'

Description

Extract significant SNPs from an object of class 'WGassociation' when genomic information is available

Usage

getSignificantSNPs(x, chromosome, model, sig = 1e-15)

Arguments

x

an object of class 'WGassociation'

chromosome

chromosome from which SNPs are extracted

model

genetic model from which SNPs are extracted

sig

statistical significance level. The default is 1e-15

Value

A list with the following components:

names

the name of SNPs

column

the columns corresponding to the SNPs in the original data frame

...

See Also

WGassociation

Examples

data(resHapMap)
# resHapMap contains the results for a log-additive genetic model

# to get the significant SNPs for chromosome 12
getSignificantSNPs(resHapMap,chromosome=12)
# to get the significant SNPs for chromosome 5
getSignificantSNPs(resHapMap,5)
# to get the significant SNPs for chromosome X at level 1e-8
getSignificantSNPs(resHapMap,5,sig=1e-8)


isglobal-brge/SNPassoc documentation built on May 15, 2023, 8:10 p.m.