GGtools-package	GGtools-package
All.cis.eQTLs	best.cis.eQTLs
allSigCis-class	best.cis.eQTLs
best.cis.eQTLs	best.cis.eQTLs
chromsUsed	best.cis.eQTLs
chromsUsed,mcwBestCis-method	best.cis.eQTLs
eqtlEstimates	eqtlTests
eqtlEstimatesManager-class	eqtlTestsManager-class
eqtlTests	eqtlTests
eqtlTestsManager-class	eqtlTestsManager-class
ex	ex
fdr	best.cis.eQTLs
fullreport	best.cis.eQTLs
fullreport,mcwBestCis,character-method	best.cis.eQTLs
fullreport,mcwBestCis,missing-method	best.cis.eQTLs
geneIndcol	transManager-class
geneNames	transManager-class
getAll	best.cis.eQTLs
getBest	best.cis.eQTLs
getCall	best.cis.eQTLs
getCisMap	getCisMap
GGtools	GGtools-package
gwSnpScreenResult-class	gwSnpTests
gwSnpTests	gwSnpTests
gwSnpTests,formula,smlSet,missing-method	gwSnpTests
gwSnpTests,formula,smlSet-method	gwSnpTests
locusNames	transManager-class
mcwBestCis-class	best.cis.eQTLs
meqtlTests	eqtlTests
meta.All.cis.eQTLs	best.cis.eQTLs
meta.best.cis.eQTLs	best.cis.eQTLs
mtransScores	transScores
nthScores	transManager-class
plot,gwSnpScreenResult,character-method	gwSnpTests
probesManaged	eqtlTestsManager-class
show,allCigCis-method	best.cis.eQTLs
show,allSigCis-method	best.cis.eQTLs
show,cisMap-method	getCisMap
show,cwBestCis-method	best.cis.eQTLs
show,eqtlTestsManager-method	eqtlTestsManager-class
show,gwSnpScreenResult,character-method	gwSnpTests
show,gwSnpScreenResult-method	gwSnpTests
show,mcwBestCis-method	best.cis.eQTLs
show,metaVCF-method	vcf2sm
show,transManager-method	transManager-class
snpsManaged	eqtlTestsManager-class
strMultPop	strMultPop
topFeats	eqtlTestsManager-class
topFeats,probeId,eqtlTestsManager-method	eqtlTestsManager-class
topFeats,rsid,eqtlTestsManager-method	eqtlTestsManager-class
topGenes	transManager-class
topScores	transManager-class
topSnps	gwSnpTests
topSnps,gwSnpScreenResult-method	gwSnpTests
tr1_obs	transScores
tr1_perm	transScores
transManager-class	transManager-class
transScores	transScores
transTab	transTab
transTab,transManager-method	transManager-class
vcf2sm	vcf2sm
vcf2sm,TabixFile,GRanges,integer-method	vcf2sm
[,eqtlTestsManager,ANY,ANY,ANY-method	eqtlTestsManager-class
