addPheno	addPheno
addPheno,WaveTilingFeatureSet-method	WaveTilingFeatureSet-class
bgCorrQn	bgCorrQn
bgCorrQn,WaveTilingFeatureSet-method	WaveTilingFeatureSet-class
cel2TilingFeatureSet	cel2TilingFeatureSet
filterOverlap	filterOverlap
filterOverlap,WaveTilingFeatureSet-method	WaveTilingFeatureSet-class
GenomeInfo	GenomeInfo-class
GenomeInfo-class	GenomeInfo-class
getAlpha	WfmInf-class
getAlpha,WfmInf-method	WfmInf-class
getBetaWav	WfmFit-class
getBetaWav,WfmFit-method	WfmFit-class
getChromosome	MapFilterProbe-class
getChromosome,MapFilterProbe-method	MapFilterProbe-class
getChromosome,WfmFit-method	WfmFit-class
getDataOrigSpace	WfmFit-class
getDataOrigSpace,WfmFit-method	WfmFit-class
getDataWaveletSpace	WfmFit-class
getDataWaveletSpace,WfmFit-method	WfmFit-class
getDelta	WfmInf-class
getDelta,WfmInf-method	WfmInf-class
getDesignMatrix	WfmFit-class
getDesignMatrix,WfmFit-method	WfmFit-class
getEff	WfmInf-class
getEff,WfmInf-method	WfmInf-class
getF	WfmFit-class
getF,WfmFit-method	WfmFit-class
getFDR	WfmInf-class
getFDR,WfmInf-method	WfmInf-class
getFilteredIndices	MapFilterProbe-class
getFilteredIndices,MapFilterProbe-method	MapFilterProbe-class
getGenomeInfo	WfmFit-class
getGenomeInfo,WfmFit-method	WfmFit-class
getGenomeInfo,WfmInf-method	WfmInf-class
getGenomicRegions	WfmInf-class
getGenomicRegions,WfmInf-method	WfmInf-class
getGroupNames	WaveTilingFeatureSet-class
getGroupNames,WaveTilingFeatureSet-method	WaveTilingFeatureSet-class
getKj	WfmFit-class
getKj,WfmFit-method	WfmFit-class
getMaxPos	WfmFit-class
getMaxPos,WfmFit-method	WfmFit-class
getMinPos	WfmFit-class
getMinPos,WfmFit-method	WfmFit-class
getNoGroups	WaveTilingFeatureSet-class
getNoGroups,WaveTilingFeatureSet-method	WaveTilingFeatureSet-class
getNoLevels	WfmFit-class
getNoLevels,WfmFit-method	WfmFit-class
getNonAnnotatedRegions	getNonAnnotatedRegions
getNonAnnotatedRegions,WfmFit,WfmInf-method	WfmInf-class
getNoProbes	WfmFit-class
getNoProbes,WfmFit-method	WfmFit-class
getPhenoInfo	WfmFit-class
getPhenoInfo,WfmFit-method	WfmFit-class
getPosition	MapFilterProbe-class
getPosition,MapFilterProbe-method	MapFilterProbe-class
getPrior	WfmFit-class
getPrior,WfmFit-method	WfmFit-class
getProbePosition	WfmFit-class
getProbePosition,WfmFit-method	WfmFit-class
getRegions	WfmInf-class
getRegions,WfmInf-method	WfmInf-class
getReplics	WaveTilingFeatureSet-class
getReplics,WaveTilingFeatureSet-method	WaveTilingFeatureSet-class
getSigGenes	getSigGenes
getSigGenes,WfmFit,WfmInf-method	WfmInf-class
getSigProbes	WfmInf-class
getSigProbes,WfmInf-method	WfmInf-class
getSmoothPar	WfmFit-class
getSmoothPar,WfmFit-method	WfmFit-class
getStrand	MapFilterProbe-class
getStrand,MapFilterProbe-method	MapFilterProbe-class
getStrand,WfmFit-method	WfmFit-class
getTwoSided	WfmInf-class
getTwoSided,WfmInf-method	WfmInf-class
getVarBetaWav	WfmFit-class
getVarBetaWav,WfmFit-method	WfmFit-class
getVarEff	WfmInf-class
getVarEff,WfmInf-method	WfmInf-class
getVarEps	WfmFit-class
getVarEps,WfmFit-method	WfmFit-class
getVarF	WfmFit-class
getVarF,WfmFit-method	WfmFit-class
getWaveletFilter	WfmFit-class
getWaveletFilter,WfmFit-method	WfmFit-class
initialize,GenomeInfo-method	GenomeInfo-class
initialize,MapFilterProbe-method	MapFilterProbe-class
initialize,WaveTilingFeatureSet-method	WaveTilingFeatureSet-class
initialize,WfmFit-method	WfmFit-class
initialize,WfmFitCircadian-method	WfmFitCircadian-class
initialize,WfmFitCustom-method	WfmFitCustom-class
initialize,WfmFitFactor-method	WfmFitFactor-class
initialize,WfmFitTime-method	WfmFitTime-class
initialize,WfmInf-method	WfmInf-class
initialize,WfmInfCompare-method	WfmInfCompare-class
initialize,WfmInfCustom-method	WfmInfCustom-class
initialize,WfmInfEffects-method	WfmInfEffects-class
initialize,WfmInfMeans-method	WfmInfMeans-class
initialize,WfmInfOverallMean-method	WfmInfOverallMean-class
makeContrasts	makeContrasts
makeDesign	makeDesign
MapFilterProbe	MapFilterProbe-class
MapFilterProbe-class	MapFilterProbe-class
plotWfm	plotWfm
plotWfm,WfmFit,WfmInf-method	WfmInf-class
selectProbesFromFilterOverlap	selectProbesFromFilterOverlap
selectProbesFromFilterOverlap,MapFilterProbe-method	MapFilterProbe-class
selectProbesFromTilingFeatureSet	selectProbesFromTilingFeatureSet
selectProbesFromTilingFeatureSet,WaveTilingFeatureSet-method	WaveTilingFeatureSet-class
show,GenomeInfo-method	GenomeInfo-class
show,MapFilterProbe-method	MapFilterProbe-class
show,WaveTilingFeatureSet-method	WaveTilingFeatureSet-class
show,WfmFit-method	WfmFit-class
show,WfmFitCircadian-method	WfmFitCircadian-class
show,WfmFitCustom-method	WfmFitCustom-class
show,WfmFitFactor-method	WfmFitFactor-class
show,WfmFitTime-method	WfmFitTime-class
show,WfmInf-method	WfmInf-class
show,WfmInfCompare-method	WfmInfCompare-class
show,WfmInfCustom-method	WfmInfCustom-class
show,WfmInfEffects-method	WfmInfEffects-class
show,WfmInfMeans-method	WfmInfMeans-class
show,WfmInfOverallMean-method	WfmInfOverallMean-class
WaveTilingFeatureSet	WaveTilingFeatureSet-class
WaveTilingFeatureSet-class	WaveTilingFeatureSet-class
wfm.fit	wfm.fit
wfm.fit,WaveTilingFeatureSet-method	WaveTilingFeatureSet-class
wfm.inference	wfm.inference
wfm.inference,WfmFit-method	WfmFit-class
WfmFit	WfmFit-class
WfmFit-class	WfmFit-class
WfmFitCircadian	WfmFitCircadian-class
WfmFitCircadian-class	WfmFitCircadian-class
WfmFitCustom	WfmFitCustom-class
WfmFitCustom-class	WfmFitCustom-class
WfmFitFactor	WfmFitFactor-class
WfmFitFactor-class	WfmFitFactor-class
WfmFitTime	WfmFitTime-class
WfmFitTime-class	WfmFitTime-class
WfmInf	WfmInf-class
WfmInf-class	WfmInf-class
WfmInfCompare	WfmInfCompare-class
WfmInfCompare-class	WfmInfCompare-class
WfmInfCustom	WfmInfCustom-class
WfmInfCustom-class	WfmInfCustom-class
WfmInfEffects	WfmInfEffects-class
WfmInfEffects-class	WfmInfEffects-class
WfmInfMeans	WfmInfMeans-class
WfmInfMeans-class	WfmInfMeans-class
WfmInfOverallMean	WfmInfOverallMean-class
WfmInfOverallMean-class	WfmInfOverallMean-class
