gwSnpTests {GGtools}R Documentation

execute a series of tests for association between genotype and expression

Description

execute a series of tests for association between genotype and expression

Usage

gwSnpTests(sym, sms, ...)
topSnps(x, n=10)

Arguments

sym

instance of probeId or genesym

sms

instance of smlSet-class

x

instance of gwSnpScreenResult

n

integer, number of test results to be reported, sorted decreasing from the most significant

...

not used

Details

The plot method for gwSnpScreenResult instances takes a second argument, the name of a Bioconductor SNPlocs.* package.

Value

an instance of the gwSnpScreenResult class, to be examined by topSnps

Note

The most basic application yields one d.f. chi-squared statistics based on score tests.

Author(s)

VJ Carey <stvjc@channing.harvard.edu>

Examples

s20 = getSS("GGtools", "20")
t1 = gwSnpTests(genesym("CPNE1")~male, s20)
topSnps(t1)
## Not run: 
plot(t1, snplocsDefault())

## End(Not run)

[Package GGtools version 5.25.3 Index]