# Generalised Joint Regression Modelling

## Documentation for package ‘GJRM’ version 0.2-6.9

- DESCRIPTION file.

## Help Pages

A B C D E F G H I J K L M N O P R S T V W X misc

GJRM-package | Generalised Joint Regression Modelling

## -- A --

aCov | Adjustment for the covariance matrix from a fitted gjrm model
adjCov | Adjustment for the covariance matrix from a fitted gjrm model
adjCovSD | Adjustment for the covariance matrix from a gjrm model fitted to complex survey data.
approx.CLM | Internal Function
ass.dp | Internal Function
ATE | Average Treatment Effect of a binary or continuous treatment variable

## -- B --

BCDF | Internal Function
bcont | Internal Function
bcont23 | Internal Function
bcont3 | Internal Function
bcont32 | Internal Function
bcontROB | Internal Function
bcontSurvGBIN | Internal Function
bcontSurvGBINROY | Internal Function
bcontSurvGBINss | Internal Function
bcontSurvGunivI | Internal Function
bcontSurvGunivInform | Internal Function
bcontSurvGunivI_ExcessHazard | Internal Function
bcontSurvGunivL | Internal Function
bcontSurvGunivL_ExcessHazard | Internal Function
bcontSurvGunivMIXED | Internal Function
bcontSurvGunivMIXED_ExcessHazard | Internal Function
bcontSurvGunivMIXED_ExcessHazard_LeftTruncation | Internal Function
bcontSurvGunivMIXED_LeftTruncation | Internal Function
bcontSurvGuniv_ExcessHazard | Internal Function
bcontSurvG_extended | Internal Function
bcontThetaOnly | Internal Function
bCopulaCLMgHsCont | Internal Function
bCopulaCLMgHsOrd | Internal Function
bcorrec | Internal Function
bcorrecDiscr | Internal Function
bcorrecFuncs | Internal Function
bcountThetaOnly | Internal Function
bdiscrcont | Internal Function
bdiscrcont12 | Internal Function
bdiscrcont13 | Internal Function
bdiscrcont23 | Internal Function
bdiscrcontThetaOnly | Internal Function
bdiscrdiscr11 | Internal Function
bdiscrdiscr12 | Internal Function
BiCDF | Internal Function
bprobgHs | Internal Function
bprobgHsBinROY | Internal Function
bprobgHsCont | Internal Function
bprobgHsCont2ROY | Internal Function
bprobgHsCont3 | Internal Function
bprobgHsCont3binTW | Internal Function
bprobgHsCont3binTWSS | Internal Function
bprobgHsCont3ROY | Internal Function
bprobgHsCont3SS | Internal Function
bprobgHsContSS | Internal Function
bprobgHsContUniv | Internal Function
bprobgHsContUniv3 | Internal Function
bprobgHsContUnivBIN | Internal Function
bprobgHsDiscr1 | Internal Function
bprobgHsDiscr1ROY | Internal Function
bprobgHsDiscr1SS | Internal Function
bprobgHsDiscr2 | Internal Function
bprobgHsDiscr2ROY | Internal Function
bprobgHsDiscr2SS | Internal Function
bprobgHsPO | Internal Function
bprobgHsPO0 | Internal Function
bprobgHsSS | Internal Function
bprobgHstwoParC | Internal Function

## -- C --

cdf.pcc | Internal Function
clarke.test | Clarke test
cond.mv | Conditional Mean/Variance from a Copula Model
cond.mv.pcc | Conditional Mean/Variance from a PCC-based Trivariate Copula Model
cond.var.i | Internal Function
conv.check | Some convergence diagnostics
cop.mod.sel | Internal Function
Cop1Cop2 | Internal Function
copgHs | Internal Function
copgHs2 | Internal Function
copgHs3 | Internal Function
copgHsAT | Internal Function
copgHsCond | Internal Function
copgHsCont | Internal Function
copgHsContFM | Internal Function
copgHsCountFM | Internal Function
copula.prob | Copula probabilities (joint and conditional) from a fitted simultaneous model
CopulaCLM | Internal fitting function
copulaReg.fit.post | Internal Function
copulaSampleSel | Internal fitting function
copulaSampleSel.fit.post | Internal Function
cov.c | Internal Function
cv.inform | Cross validation for informative censoring univariate survival models

## -- D --

distrExIntegrate | Internal Function
distrHs | Internal Function
distrHsAT | Internal Function
distrHsAT1 | Internal Function
distrHsATDiscr | Internal Function
distrHsATDiscr2 | Internal Function
distrHsDiscr | Internal Function
dof.tr | Internal Function
Dpens | Differentiable penalties
Dpens2 | Internal Function

## -- E --

edf.loop | Internal Function
enu.tr | Internal Function
esp.tr | Internal Function
eta.tr | Internal Function

## -- F --

fix.fenv | Internal Function
form.check | Internal Function
form.eq12 | Internal Function

## -- G --

g.tri | Internal Function
g.triESS | Internal Function
g.triSS | Internal Function
gamls.upsv | Internal Function
gamlss | Generalised Additive Models for Location, Scale and Shape and Beyond
gamlss.etamu | Internal Function
gamlss.fit.post | Internal Function
gamlss.gH | Internal Function
gamlssObject | Fitted gamlssObject object
ggm.Deriv | Internal Function
ggm.DerivOPT1 | Internal Function
ggm.DerivOPT2 | Internal Function
ggmtrust | ggmtrust for penalised network
ggmtrust.path | Internal Function
gjrm | Generalised Joint Regression Models with Binary/Continuous/Discrete/Survival Margins
gjrm.pcc | Three-Dimensional PCC Models with Continuous Margins
gjrmObject | Fitted gjrm object
gt.bpm | Gradient test

## -- H --

H.tri | Internal Function
H.triESS | Internal Function
H.triSS | Internal Function
haz.surv | Post-estimation calculation of hazard, cumulative hazard and survival functions
hfunc | Compute h-functions (conditional distributions) for a bivariate copula

## -- I --

inform.setup | Internal Function
intB | Internal Function

## -- J --

jc.probs1 | Copula probabilities (joint and conditional) from a fitted simultaneous model
jc.probs2 | Copula probabilities (joint and conditional) from a fitted simultaneous model
jc.probs3 | Copula probabilities (joint and conditional) from a fitted simultaneous model
jc.probs4 | Copula probabilities (joint and conditional) from a fitted simultaneous model
jc.probs5 | Copula probabilities (joint and conditional) from a fitted simultaneous model
jc.probs6 | Copula probabilities (joint and conditional) from a fitted simultaneous model
jc.probs7 | Copula probabilities (joint and conditional) from a fitted simultaneous model
jc.probs8 | Copula probabilities (joint and conditional) from a fitted simultaneous model
jc.probs9 | Copula probabilities (joint and conditional) from a fitted simultaneous model
jointCDF | Copula probabilities (joint and conditional) from a fitted simultaneous model
jointPDF | Copula probabilities (joint and conditional) from a fitted simultaneous model

## -- K --

k.tau | Kendall's tau a fitted joint model

## -- L --

ldTweedie | Internal Function
llpsi | Internal Function
LM.bpm | Lagrange Multiplier Test (Score Test)
lmc | Linear Model Fitting with Constraints
logLik.ggmtrust | Extract the log likelihood for a fitted copula model
logLik.lmc | Extract the log likelihood for a fitted copula model
logLik.SemiParBIV | Extract the log likelihood for a fitted copula model

## -- M --

mar.cond.var | Internal Function
marg.mv | Marginal Mean/Variance
mb | Nonparametric (worst-case and IV) Manski's bounds
mc.copula.prob | Monte Carlo Copula Probabilities from a Fitted PCC Model
mice.impute.copulaSS | Internal Function
mm | Internal Function
mmf | Internal Function

## -- N --

numch | Internal Function
numgh | Internal Function

## -- O --

OR | Causal odds ratio of a binary/continuous treatment variable
overall.sv | Internal Function
overall.svG | Internal Function

## -- P --

PDef | Internal Function
PE | Partial effect from a binary bivariate model
pen | Internal Function
penCor | Internal Function
plot.SemiParBIV | Plotting function
polys.map | Geographic map with regions defined as polygons
polys.setup | Set up geographic polygons
PosDefCor | Internal Function
postVb | Internal Function
pp | Internal Function
pream.wm | Internal Function
pred.gp | Function to predict quantiles from GP and DGP distributions
pred.var | Internal Function
predict.CopulaCLM | Prediction function
predict.SemiParBIV | Prediction function
prev | Estimated overall prevalence from a sample selection model
print.ATE | Print an ATE object
print.cond.mv | Print a cond.mv object
print.copulaSampleSel | Print a copulaSampleSel object
print.gamlss | Print a gamlss object
print.gjrm | Print a gjrm/gjrm.pcc object
print.gjrm.pcc | Print a gjrm/gjrm.pcc object
print.marg.mv | Print a marg.mv object
print.mb | Print an mb object
print.OR | Print an OR object
print.PE | Print an PE object
print.prev | Print an prev object
print.RR | Print an RR object
print.SATE | Print an SATE object
print.SemiParBIV | Print a SemiParBIV object
print.SemiParROY | Print a SemiParROY object
print.SemiParTRIV | Print a SemiParTRIV object
print.summary.copulaSampleSel | copulaSampleSel summary
print.summary.gamlss | gamlss summary
print.summary.gjrm | gjrm summary
print.summary.gjrm.pcc | Summary Method for 'gjrm.pcc' Objects
print.summary.SemiParBIV | SemiParBIV summary
print.summary.SemiParROY | SemiParROY summary
print.summary.SemiParTRIV | SemiParTRIV summary
probm | Internal Function
probmS | Internal Function
pscr | Internal Function
pscr0 | Internal Function
pTweed | Internal Function

## -- R --

r.resp | Internal Function
Reg2Copost | Internal Function
regH | Internal Function
res.check | Diagnostic plots for discrete/continuous response margins
resp.check | Diagnostic plot for a variable
resp.CLM | Internal Function
rIC | Internal Function
rMVN | Multivariate Normal Variates
rob.const | Bootstrap procedure to help select the robust constant in a GAMLSS
rob.int | Tool for tuning bounds of integral in robust models
rpcc | Simulation from a Fitted Trivariate PCC Copula Model
RR | Causal risk ratio of a binary/continuous treatment variable

## -- S --

S.m | Internal Function
SATE | Survival Average Treatment Effects of a binary treatment variable
SemiParBIV | Internal fitting function
SemiParBIV.fit | Internal Function
SemiParBIV.fit.post | Internal Function
SemiParROY | Internal fitting function
SemiParROY.fit.post | Internal Function
SemiParTRIV | Internal fitting function
SemiParTRIV.fit.post | Internal Function
sim.resp | Internal Function
SS | Internal Function
startsn | Internal Function
summary.copulaSampleSel | copulaSampleSel summary
summary.gamlss | gamlss summary
summary.gjrm | gjrm summary
summary.gjrm.pcc | Summary Method for 'gjrm.pcc' Objects
summary.SemiParBIV | SemiParBIV summary
summary.SemiParROY | SemiParROY summary
summary.SemiParTRIV | SemiParTRIV summary
survExcInd | Internal Function
susu | Internal Function
susutsn | Internal Function

## -- T --

teta.tr | Internal Function
theta2tau | Internal Function
transform_bb | Internal Function
TRIapprox | Internal Function
triprobgHs | Internal Function
triprobgHsESS | Internal Function
triprobgHsSS | Internal Function

## -- V --

vis.gam2 | Internal Function
vuong.test | Vuong test

## -- W --

working.comp | Internal Function

## -- X --

Xdpred | Internal Function

## -- misc --

.qqenv.chisq2 | Diagnostic plots for discrete/continuous response margins