| NEWS | R Documentation |
New demo("survtram") and demo("hcc").
predict methods for tram and stram
now offer the same type argument as
mlt::predict.ctm offers.
Allow shift-scale transformation models in mmlt.
Add nonparametric log-likelihood to Compris.
Improved, simplified, and generalised implementation of mmlt.
Coxph, Colr, and BoxCox allow unbiased
estimation of time-to-event distributions under dependent
censoring.
All tram models can be equipped with frailty terms.
Fix some minor issues.
Update demo stram.
Add simulate.mmlt.
Survreg didn't work with constraints, reported by Lucas Kook.
mtram didn't deal properly with interval censoring in all cases.
Enable stratification for shift-scale transformation models (still experimental).
Fix S3 argument issues.
Try to detect negative SEs.
Stabilise and generalise mmlt: Alternative link functions,
separate lower triangular matrix storage and computations from
mmlt.
coef(<mmlt>, type = "Sigma") and coef(<mmlt>, type = "Corr")
were incorrect for more than three dimensions.
Improved numerical stability in mtram.
New location-scale functionality, see demo("stram").
New Laplace link function.
New cauchit link function.
Minor bug fixed for shift-scale transformation models (still experimental).
bread.tram added for sandwich to work.
Update mtram vignette; move code to demo.
Add shift-scale transformation models (experimental).
Add methods for probabilistic indices and overlap coefficients + friends.
Export Gradient and Hessian methods.
Simplify score_test and profile: Use fixed
instead of offset.
Models with standardisation now available in mtram for exact
continuous outcomes and link functions other than probit.
Remove arguments ignored by mlt.
Move mtram vignette code to demo as it took too long on Windows for CRAN.
Deal with stratum - covariate interactions, overparameterised coefficients are constraint to zero.
Make sure to use the Schur complement when computing
variances in for linear transformation models in
score_test and perm_test.
Fix LaTeX problems.
Add dofit argument to mmlt.
Robustify vcov for mmlt objects.
Add experimental score_test and perm_test methods
for glm.
Add simulate method.
Enable nonparametric likelihood estimation by Polr.
New argument sparse_nlevels to tram, requesting
a model Matrix for ordered factors with at least
sparse_nlevels levels.
Add experimental score_test and perm_test for
survival::coxph.
Update simulation code.
Robustify computation of score intervals.
Add Spearman correlation to mmlt example.
Lehmann() parameter is now labelled as proportional reverse time hazard ratio.
Add mmlt for multivariate conditional transformation models
(continuous responses only for now).
Reproducibility material for <arxiv:1906.03151> added to package.
Force support to start at time zero and constrain cumulative
hazard to zero for time zero in Aareg.
Add Aareg for Aalen additive hazard models.
score_test generic and method added for computing
score tests and corresponding confidence intervals.
perm_test generic and method added for computing
permutation score tests.
PI converts log-odds ratios to probabilistic indices and
vice versa.
profile method added for computing
profile likelihood confidence intervals.
Allow additional linear inequality constraints for regression coefficients.
Fix problem in C header file.
Fix problems with responses of class R, spotted by Balint Tamasi.
Add new demo.
Deal with model_only in Survreg, spotted by Balint Tamasi.
y | s1:s2 ~ x lead to rank-deficit models, the intercept is
now removed.
Not really a bug, but time-consuming examples were removed (or replaced by static output) in package vignettes to make CRAN happy.
as.mlt returned an object of class mlt but not
mlt_fit.
New marginally interpretable models for clustered data
in mtram, see mtram vignette. This is still
experimental and very rough, so please be careful.
Compute vcov.tram via Schur complement when possible.
Add regression test for count data and log_first = TRUE.
tram objects are now in line with multcomp::glht,
allowing post-hoc multiple comparisons.
log_first = TRUE is now accepted by tram and all
model functions calling tram. This is still experimental.
Silence regression tests on Windows.
New extrapolate = TRUE option for all models constraints
the second derivate of the Bernstein transformation function to be
zero at support. This helps to get rid of possible
discontinuous densities at support.
Add Lehmann for fitting shift transformation models those
linear predictor can be interpreted as log-Lehmann-alternative.
Add method = "loglog" to Polr.
New update method.
Use default bounds = c(0, Inf) for Surv objects (for example
in Coxph.
Update to mlt 1.0-2.
Likelihood ratio tests with fixed parameters gave an error.
Remove strata from linear predictor (experimental).
Try to implement a better guess for the add argument
later defining the axes corresponding to the response
in plots.
All models accept add and bounds arguments.
tram first published on CRAN.