add.cond.mean.many	add.joint.mean.many
add.cond.mean.one	add.joint.mean.many
add.cond.meanSq.one	add.joint.mean.many
add.generator	add.generator
add.joint.mean.many	add.joint.mean.many
add.joint.mean.one	add.joint.mean.many
add.joint.meanSq.one	add.joint.mean.many
add.uncond.mean.one	add.uncond.mean.one
addhold.cond.mean.one	add.joint.mean.many
addhold.generator	add.generator
addhold.joint.mean.one	add.joint.mean.many
addrem.cond.mean.one	add.joint.mean.many
addrem.generator	add.generator
addrem.joint.mean.one	add.joint.mean.many
addremhold.generator	add.generator
all.cond.mean.PO	add.joint.mean.many
all.cond.mean2.PO	add.joint.mean.many
ARsim	ARsim
BD.MCMC.SC	BD.MCMC.SC
bdARsimCondEnd	bdARsimCondEnd
bdARsimCondEnd.1	bdARsimCondEnd
BDloglikelihood.PO	BDloglikelihood.PO
BDloglikelihood.PO.CTMC_PO_1	BDloglikelihood.PO
BDloglikelihood.PO.CTMC_PO_many	BDloglikelihood.PO
BDloglikelihood.PO.list	BDloglikelihood.PO
BDMC-class	BDMC-class
BDMC_many-class	BDMC_many-class
BDPOloglikeGradSqr.CTMC_PO_many	BDPOloglikeGradSqr.CTMC_PO_many
BDsummaryStats	BDsummaryStats
BDsummaryStats,BDMC-method	BDsummaryStats
BDsummaryStats,BDMC_many-method	BDsummaryStats
BDsummaryStats,list-method	BDsummaryStats
BDsummaryStats.PO	BDsummaryStats
BDsummaryStats.PO,CTMC_PO_1-method	BDsummaryStats
BDsummaryStats.PO,CTMC_PO_many-method	BDsummaryStats
BDsummaryStats.PO,list-method	BDsummaryStats
birth.death.simulant	birth.death.simulant
combineCTMC	combineCTMC
CTMC-class	CTMC-class
CTMC.simulate	CTMC.simulate
CTMC.simulate.piecewise	CTMC.simulate.piecewise
CTMC2list	CTMC2list
CTMCPO2indepIntervals	CTMCPO2indepIntervals
CTMCPO2indepIntervals.CTMC_PO_1	CTMCPO2indepIntervals
CTMCPO2indepIntervals.CTMC_PO_many	CTMCPO2indepIntervals
CTMC_PO_1-class	CTMC_PO_1-class
CTMC_PO_many-class	CTMC_PO_many-class
derivType	derivType
E.step.SC	EMutilities
EM.BD.SC	EM.BD.SC
EM.BD.SC.1	EM.BD.SC
f.i	sampleJumpTime
genDoneSided	num.deriv
getBDinform.full.SC.manual	getBDinform
getBDinform.lost.SC.manual	getBDinform
getBDinform.PO	getBDinform.PO
getBDinform.PO.SC	getBDinform.PO
getBDinform.PO.SC.manual	getBDinform
getBDjTimes	getBDjTimes
getBDMCsPOlist	getBDMCsPOlist-methods
getBDMCsPOlist,CTMC_PO_many-method	getBDMCsPOlist-methods
getBDMCsPOlist-methods	getBDMCsPOlist-methods
getBDsummaryExpecs	BD.EMInference.prodExpecs
getBDsummaryProdExpecs	BD.EMInference.prodExpecs
getDataSummary	getDataSummary.CTMC_PO_many
getDataSummary.CTMC_PO_many	getDataSummary.CTMC_PO_many
getInitParams	getInitParams
getIthJumpTime	getIthJumpTime
getIthJumpTimes	getIthJumpTime
getIthState	getIthJumpTime
getMCstate	getMCstate
getNewParams.SC	getNewParams.SC
getPartialData	getPartialData
getStates	getStates
getStates,BDMC-method	getStates
getStates,CTMC-method	getStates
getStates,CTMC_PO_1-method	getStates
getSubMC	getSubMC
getT	getT-methods
getT,BDMC-method	getT-methods
getT,BDMC_many-method	getT-methods
getT,CTMC-method	getT-methods
getT,CTMC_many-method	getT-methods
getT,CTMC_PO_1-method	getT-methods
getT,CTMC_PO_many-method	getT-methods
getT-methods	getT-methods
getTimes	getTimes
getTimes,BDMC-method	getTimes
getTimes,CTMC-method	getTimes
getTimes,CTMC_PO_1-method	getTimes
getTs	getTs-methods
getTs,BDMC_many-method	getTs-methods
getTs,CTMC_many-method	getTs-methods
getTs,CTMC_PO_many-method	getTs-methods
getTs-methods	getTs-methods
graph.CTMC	graph.CTMC
graph.CTMC.PO	graph.CTMC
hessianOneSided	num.deriv
hold.cond.mean.one	add.joint.mean.many
hold.cond.meanSq.one	add.joint.mean.many
hold.generator	add.generator
hold.joint.meanSq.one	add.joint.mean.many
hold.uncond.mean.one	add.uncond.mean.one
holdTime	Nplus
list2CTMC	list2CTMC
M.step.SC	EMutilities
Nij	Nij
NijBD	BDsummaryStats
NijBD.CTMC_many	BDsummaryStats
Nminus	Nplus
Nminus.CTMC_PO_many	Nplus
Nplus	Nplus
Nplus.CTMC_PO_many	Nplus
num.deriv	num.deriv
p.i	sampleJumpTime
plot,CTMC,missing-method	plot-methods
plot,CTMC_PO_1,missing-method	plot-methods
plot-methods	plot-methods
power.coef.many	power.coef.one
power.coef.one	power.coef.one
process.generator	add.generator
process.prob.many	process.prob.one
process.prob.one	process.prob.one
rem.cond.mean.many	add.joint.mean.many
rem.cond.mean.one	add.joint.mean.many
rem.cond.meanSq.one	add.joint.mean.many
rem.generator	add.generator
rem.joint.mean.many	add.joint.mean.many
rem.joint.mean.one	add.joint.mean.many
rem.joint.meanSq.one	add.joint.mean.many
rem.uncond.mean.one	add.uncond.mean.one
remhold.cond.mean.one	add.joint.mean.many
remhold.generator	add.generator
remhold.joint.mean.one	add.joint.mean.many
sampleJumpTime2	sampleJumpTime
sim.condBD	sim.condBD
sim.condBD.1	sim.condBD
sim.condBD.main	sim.condBD
sim.condBD.main.CTMC_PO_1	sim.condBD
sim.condBD.main.default	sim.condBD
sim.condBD.main.list	sim.condBD
simplify	simplify
timeave.cond.mean.many	add.joint.mean.many
timeave.cond.mean.one	add.joint.mean.many
timeave.joint.mean.many	add.joint.mean.many
timeave.joint.mean.one	add.joint.mean.many
timeave.laplace	add.generator
waitTimes	BDsummaryStats
[,CTMC_many,ANY,ANY,ANY-method	bracket-methods
[,CTMC_many-method	sub-methods
[,CTMC_PO_many,ANY,ANY,ANY-method	bracket-methods
[,CTMC_PO_many-method	sub-methods
[[,CTMC_many,ANY,ANY,ANY-method	doublebracket-methods
[[,CTMC_many-method	sub-methods
[[,CTMC_PO_many,ANY,ANY,ANY-method	doublebracket-methods
[[,CTMC_PO_many-method	sub-methods
