best.cis.eQTLs collect genewise best scoring eQTL
eqtlTests compute association statistics between all
probes and SNP in an smlSet instance
eqtlTestsManager-class
Class '"eqtlTestsManager"'
ex ExpressionSet instance for illustrating
integrative smlSet container
getCisMap create, using Bioconductor annotation
resources, a structure that enumerates SNP in
the vicinity of ('cis' to) genes
gwSnpTests execute a series of tests for association
between genotype and expression
strMultPop serialization of a table from Stranger's
multipopulation eQTL report
hg19.si.df data frame representation of seqinfo for Homo.sapiens
at hg19 build
The package depends on GGBase, which includes additional
infrastructure for integrative data structures and data
filtering.
Author(s)
VJ Carey <stvjc@channing.harvard.edu>
Maintainer: VJ Carey <stvjc@channing.harvard.edu>
See Also
getSS for acquiring containers for
integrative data on genetics of expression.
Examples
## Not run:
# acquire chromosome 20 genotypes and all expression data for
# 90 CEU samples as published at Wellcome Trust GENEVAR and
# HapMap phase II
c20 = getSS("GGtools", "20")
# perform a focused eQTL search
t1 = gwSnpTests(genesym("CPNE1")~male, c20)
# get best hits
topSnps(t1)
## End(Not run)