gwSnpTests: execute a series of tests for association between genotype...
In GGtools: software and data for analyses in genetics of gene expression

execute a series of tests for association between genotype and expression

1 2	gwSnpTests(sym, sms, ...) topSnps(x, n=10)

`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

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

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

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

VJ Carey <stvjc@channing.harvard.edu>

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

## End(Not run)

GGtools documentation built on Nov. 8, 2020, 6:32 p.m.

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