Statomica-package	Statomica-package
annotation,ANY-method	Statomica-internal
annotation,basicFdr-method	Statomica-internal
annotation,bFdr-method	Statomica-internal
annotation,biasEstimate-method	Statomica-internal
annotation,biasEstimates-method	Statomica-internal
annotation,eFdr-method	Statomica-internal
annotation,errorPair-method	Statomica-internal
annotation,Estimator-method	Statomica-internal
annotation,loss-method	Statomica-internal
annotation,prnSetPair-method	Statomica-internal
annotation,Prob0-method	Statomica-internal
annotation,probabilisticRisk-method	Statomica-internal
annotation,probabilisticRisks-method	Statomica-internal
annotation,ProbabilityEstimate-method	Statomica-internal
annotation,pseudoFdr-method	Statomica-internal
annotation,sFdr-method	Statomica-internal
annotation,unsortableEstimate-method	Statomica-internal
annotation,xprnSet-method	Statomica-internal
annotation-methods	Statomica-internal
annotation<-,prnSet,ANY-method	Statomica-internal
annotation<-,prnSetPair,ANY-method	Statomica-internal
annotation<--methods	Statomica-internal
as.numeric,est.lfdr.pvalue-method	Statomica-internal
as.numeric-methods	Statomica-internal
assert.are	Statomica-internal
assert.is	Statomica-internal
BFDR	Statomica-internal
colnames,d1classx-method	Statomica-internal
colnames,prnSet-method	Statomica-internal
colnames,prnSetPair-method	Statomica-internal
colnames-methods	Statomica-internal
colnames<-,d1classx,d1classx-method	Statomica-internal
colnames<--methods	Statomica-internal
d.absTd	d.absTd
data2statANDpvalue	Statomica-internal
dim,xprnSet-method	Statomica-internal
dim-methods	Statomica-internal
dimnames,xprnSet-method	Statomica-internal
dimnames-methods	Statomica-internal
est2list	Statomica-internal
estimated.BFDR	Statomica-internal
estimated.LFDR	Statomica-internal
exp,ExpressionSet-method	Statomica-internal
exp,xprnSet-method	Statomica-internal
exp-methods	Statomica-internal
exprs,prnSetPair-method	Statomica-internal
exprs,XprnSet-method	Statomica-internal
exprs,xprnSet-method	Statomica-internal
exprs-methods	Statomica-internal
fData,prnSet-method	Statomica-internal
fData,prnSetPair-method	Statomica-internal
fData-methods	Statomica-internal
fData<-,prnSet,ANY-method	Statomica-internal
fData<--methods	Statomica-internal
featureNames,xprnSet-method	Statomica-internal
featureNames,xprnSetObjectPair-method	Statomica-internal
featureNames,xprnSetPair-method	Statomica-internal
featureNames-methods	Statomica-internal
get.args	Statomica-internal
get.other.from.testfun	Statomica-internal
get.pvalues	Statomica-internal
get.stats	Statomica-internal
hist,ANY-method	Statomica-internal
hist,errorPair-method	Statomica-internal
hist,posteriorIntervalPlus-method	Statomica-internal
hist,sim.biasEstimates-method	Statomica-internal
hist,xprnSet-method	Statomica-internal
hist-methods	Statomica-internal
internals	Statomica-internal
is.err	Statomica-internal
is.error	Statomica-internal
is.prob	Statomica-internal
is.prob,ANY-method	Statomica-internal
is.prob,est.lfdr.pvalue-method	Statomica-internal
is.prob-methods	Statomica-internal
length,basicFdr-method	Statomica-internal
length,bFdr-method	Statomica-internal
length,bias.corrected.certainty-method	Statomica-internal
length,binomMetalevel-method	Statomica-internal
length,cvalue-method	Statomica-internal
length,eFdr-method	Statomica-internal
length,empiricalNull-method	Statomica-internal
length,est.lfdr.pvalue-method	Statomica-internal
length,pointEstimate-method	Statomica-internal
length,posteriorInterval-method	Statomica-internal
length,probabilisticRisk-method	Statomica-internal
length,pseudoFdr-method	Statomica-internal
length,riskPair-method	Statomica-internal
length,sFdr-method	Statomica-internal
length,ttest-method	Statomica-internal
length,xprnSet-method	Statomica-internal
length-methods	Statomica-internal
list2est	Statomica-internal
log,ExpressionSet-method	Statomica-internal
log-methods	Statomica-internal
log2,ExpressionSet-method	Statomica-internal
log2-methods	Statomica-internal
logb,ANY,ANY-method	Statomica-internal
logb,ExpressionSet,ANY-method	Statomica-internal
logb,ExpressionSet,missing-method	Statomica-internal
logb,XprnSet,ANY-method	Statomica-internal
logb,XprnSet,missing-method	Statomica-internal
logb,xprnSet,missing-method	Statomica-internal
logb,xprnSetPair,missing-method	Statomica-internal
logb-methods	Statomica-internal
MakeNames	Statomica-internal
mean,error-method	Statomica-internal
mean,nonparametricBootstrap-method	Statomica-internal
mean,posteriorP0.error-method	Statomica-internal
mean,resampled.posteriorP0-method	Statomica-internal
mean,XprnSet-method	Statomica-internal
mean,xprnSet-method	Statomica-internal
mean-methods	Statomica-internal
median,ANY,ANY-method	Statomica-internal
median,inverseCDFs,missing-method	Statomica-internal
median-methods	Statomica-internal
myalpha	Statomica-internal
mylocfdr	Statomica-internal
myzsim	Statomica-internal
names,basicFdr-method	Statomica-internal
names,bFdr-method	Statomica-internal
names,biasEstimate-method	Statomica-internal
names,CI-method	Statomica-internal
names,cvalue-method	Statomica-internal
names,eFdr-method	Statomica-internal
names,empiricalNull-method	Statomica-internal
names,est.lfdr.pvalue-method	Statomica-internal
names,estimate-method	Statomica-internal
names,lik.ratios-method	Statomica-internal
names,pointEstimate-method	Statomica-internal
names,posteriorInterval-method	Statomica-internal
names,posteriorP0-method	Statomica-internal
names,Prob0-method	Statomica-internal
names,pseudoFdr-method	Statomica-internal
names,sFdr-method	Statomica-internal
names,ttest-method	Statomica-internal
names,xprnSet-method	Statomica-internal
names,xprnSetPair-method	Statomica-internal
names-methods	Statomica-internal
names<-,est.lfdr.pvalue,character-method	Statomica-internal
names<--methods	Statomica-internal
ncol,d1classx-method	Statomica-internal
ncol,NULL-method	Statomica-internal
ncol,prnSet-method	Statomica-internal
ncol,prnSetPair-method	Statomica-internal
ncol-methods	Statomica-internal
new.est.lfdr.pvalue	Statomica-internal
nplot	Statomica-internal
nplot,ANY,ANY-method	Statomica-internal
nplot,est.lfdr.pvalue,missing-method	Statomica-internal
nplot,list,missing-method	Statomica-internal
nplot-methods	Statomica-internal
nrow,d1classx-method	Statomica-internal
nrow,NULL-method	Statomica-internal
nrow,prnSet-method	Statomica-internal
nrow,prnSetPair-method	Statomica-internal
nrow-methods	Statomica-internal
nXprnSet	xprnSet
nxprnSet	xprnSet
nxprnSetPair	xprnSetPair
p.absTd	d.absTd
pData,prnSet-method	Statomica-internal
pData,prnSetPair-method	Statomica-internal
pData,xprnSet-method	Statomica-internal
pData-methods	Statomica-internal
pData<-,prnSet,ANY-method	Statomica-internal
pData<--methods	Statomica-internal
posteriorP0	Statomica-internal
pval2stat	Statomica-internal
q.absTd	d.absTd
rownames,d1classx-method	Statomica-internal
rownames,prnSet-method	Statomica-internal
rownames,prnSetPair-method	Statomica-internal
rownames-methods	Statomica-internal
sqrt,error-method	Statomica-internal
sqrt,errorPair-method	Statomica-internal
sqrt,errorPairs-method	Statomica-internal
sqrt,Numeric-method	Statomica-internal
sqrt-methods	Statomica-internal
stat	stat
stat.toANDfrom.pvalue	Statomica-internal
stat2pval	Statomica-internal
Statomica	Statomica-package
uniquex	Statomica-internal
XprnSet	xprnSet
xprnSet	xprnSet
XprnSet,all.matrixORnumeric,missingOrNULL,missingOrNULL-method	Statomica-internal
xprnSet,all.matrixORnumeric,missingOrNULL,missingOrNULL-method	Statomica-internal
XprnSet,all.pfdata,all.matrixORnumeric,all.pfdata-method	Statomica-internal
xprnSet,all.pfdata,all.matrixORnumeric,all.pfdata-method	Statomica-internal
xprnSet,AnnotatedDataFrame,matrix,AnnotatedDataFrame-method	Statomica-internal
xprnSet,AnnotatedDataFrame,matrix,missing-method	Statomica-internal
XprnSet,ANY,ANY,ANY-method	Statomica-internal
xprnSet,ANY,ANY,ANY-method	Statomica-internal
xprnSet,data.frame,matrix,missing-method	Statomica-internal
xprnSet,missing,matrix,missing-method	Statomica-internal
xprnSet,missing,numeric,missing-method	Statomica-internal
xprnSet,missing,xprnSet,missing-method	Statomica-internal
XprnSet-class	xprnSet-class
xprnSet-class	xprnSet-class
XprnSet-methods	Statomica-internal
xprnSet-methods	Statomica-internal
xprnSetPair	xprnSetPair
xprnSetPair,all.matrixORnumeric,all.matrixORnumeric,missing-method	Statomica-internal
xprnSetPair,ANY,ANY,ANY-method	Statomica-internal
xprnSetPair,xprnSet,missing,character-method	Statomica-internal
xprnSetPair,XprnSet,XprnSet,missing-method	Statomica-internal
xprnSetPair,xprnSet,xprnSet,missing-method	Statomica-internal
xprnSetPair-class	xprnSetPair-class
xprnSetPair-methods	Statomica-internal
[,basicFdr,ANY,missing,ANY-method	Statomica-internal
[,bFdr,ANY,missing,ANY-method	Statomica-internal
[,bias.corrected.certainty,ANY,missing,ANY-method	Statomica-internal
[,bias.corrected.pvalue,ANY,missing,ANY-method	Statomica-internal
[,bias.corrected.zvalue,ANY,missing,ANY-method	Statomica-internal
[,biasEstimate,ANY,missing,ANY-method	Statomica-internal
[,cvalue,ANY,missing,ANY-method	Statomica-internal
[,cvalues,ANY,missing,ANY-method	Statomica-internal
[,eFdr,ANY,missing,ANY-method	Statomica-internal
[,error,ANY,missing,ANY-method	Statomica-internal
[,errorPairs,ANY,missing,ANY-method	Statomica-internal
[,est.lfdr.pvalue,ANY,missing,ANY-method	Statomica-internal
[,estimate,ANY,missing,ANY-method	Statomica-internal
[,inverseCDFs,ANY,missing,ANY-method	Statomica-internal
[,loss,ANY,missing,ANY-method	Statomica-internal
[,Matrix,ANY,ANY,ANY-method	Statomica-internal
[,Matrix,ANY,missing,ANY-method	Statomica-internal
[,Matrix,missing,ANY,ANY-method	Statomica-internal
[,Numeric,ANY,missing,ANY-method	Statomica-internal
[,pNumeric,ANY,missing,ANY-method	Statomica-internal
[,posteriorInterval,ANY,missing,ANY-method	Statomica-internal
[,posteriorIntervalPlus,ANY,missing,ANY-method	Statomica-internal
[,posteriorP0.error,ANY,missing,ANY-method	Statomica-internal
[,predictionError,ANY,missing,ANY-method	Statomica-internal
[,Prob0,ANY,missing,ANY-method	Statomica-internal
[,probabilisticRisks,ANY,missing,ANY-method	Statomica-internal
[,pseudoFdr,ANY,missing,ANY-method	Statomica-internal
[,sFdr,ANY,missing,ANY-method	Statomica-internal
[,sim.biasEstimates,ANY,ANY,missing-method	Statomica-internal
[,sortableEstimate,ANY,missing,ANY-method	Statomica-internal
[,statistic.cvalue,ANY,missing,ANY-method	Statomica-internal
[,ttest,ANY,missing,ANY-method	Statomica-internal
[,unsortableEstimate,ANY,missing,ANY-method	Statomica-internal
[,xprnSet,ANY,ANY,ANY-method	Statomica-internal
[,xprnSet,ANY,missing,ANY-method	Statomica-internal
[,xprnSet,missing,ANY,ANY-method	Statomica-internal
[,xprnSetPair,ANY,missing,ANY-method	Statomica-internal
[-methods	Statomica-internal
[<-,Matrix,ANY,missing-method	Statomica-internal
[<-,Numeric,ANY,missing-method	Statomica-internal
[<-,pNumeric,ANY,missing-method	Statomica-internal
[<--methods	Statomica-internal
