centerAutosomesAt	centerAutosomesAt
cnEmission	cnEmission
cnEmission,CopyNumberSet,ANY-method	cnEmission-methods
cnEmission,matrix,matrix-method	cnEmission-methods
cnEmission,oligoSnpSet,ANY-method	cnEmission-methods
cnEmission-methods	cnEmission-methods
gtEmission	gtEmission
gtEmission,matrix-method	gtEmission-methods
gtEmission,SnpSet-method	gtEmission-methods
gtEmission-methods	gtEmission-methods
hmm	hmm
hmm,CNSet,HmmOptionList-method	HmmOptionList-class
hmm,CopyNumberSet,HmmOptionList-method	HmmOptionList-class
hmm,oligoSnpSet,HmmOptionList-method	HmmOptionList-class
hmm,SnpSet,HmmOptionList-method	HmmOptionList-class
hmm.setup	HmmOptionList
HmmOptionList	HmmOptionList
HmmOptionList-class	HmmOptionList-class
hmmResults	hmmResults
icePlatforms	icePlatforms
order,oligoSnpSet-method	oligoSnpSet-methods
robustSds	robustSds
sd	sd-methods
sd,CopyNumberSet-method	sd-methods
sd,oligoSnpSet-method	oligoSnpSet-methods
sd-methods	sd-methods
xypanel	xypanel
xyplot	xyplot
xyplot,formula,SnpSet-method	xyplot
xyplot2	xyplot
xyplot2,formula,CNSet,RangedDataCNV-method	xyplot
xyplot2,formula,eSet,RangedDataCNV-method	xyplot
