Added ability to choose style type when modifying models.
Currently supported styles are: “camel” for
variablesLikeThis, “snake” for
variables_like_this, “dot” for
variables.like.this and “blank” for
variableslikethis. This can be selected with
setCombineType().
With the new combination style, you can change how
eta variables are constructed with the
option(nlmixr2lib.etaCombineType="camel") or whatever you
wish it to the variable style to be.
Added new model building framework for building models
PK model building functions
addTransit()/removeTransit() which were
present before, but now modified and made a bit more robust, more
closely matching literature method of transit compartments.
addDepot()/removeDepot() which were
present before, but modified to be a bit more robust.
addWeibullAbs() which adds a Weibull absorption to a
PK model
convertMM() converts linear elimination to
Michaelis-Menten elimination
transPK() converts the cl style
parameter transformations to various other PK transformations like
k, aob, alpha,
k12
PD model building functions
addIndirectLin() – this adds an indirect effect
model to a PK model that has a concentration Cc in the
model. This purposely uses a simple linear effect of Cc*Ek
or Cc*Ik so it will be easy to parse and turn into other
functional forms (like Emax or Hill). If the
PK model is not present it will use Cc as a covariate in a
purely PD models.
addIndirect() – this builds on
addIndirectLin() and adds Emax or
Hill models to a PK model. You can also set
imax=1 or emax=1 to drop these parameters from
being estimated in the model. Additionally hill=TRUE will
add a Hill coefficient to the sigmoid model.
addEffectCmtLin() – this adds an effect compartment
based on the Cc in the model. The linear effect can be
modified into other function forms.
addDirectLin() – this adds a direct effect model
based on the Cc in the model.
Changing functional forms of Effect models
convertEmax() changes linear effect models to Emax
models
convertEmaxHill() changes linear effect models to
Hill models
convertQuad() changes linear effect models to
quadratic models
convertLogLin() changes linear effect models to
log-linear models
Changing functional forms of Baselines in non-indirect response models
addBaselineConst() changes the zero baseline to a
estimated constant
addBaselineLin() changes the zero baseline to a
estimated constant and a linear constant with respect to
time.
addBaselineExp() changes the zero baseline to a
exponential decay with respect to time
addBaseline1exp() – the baseline effect is changed
from zero to to an exponential approaching to a constant (with respect
to time).
Changing model properties (all use
addCmtProp())
addBioavailability() adds bioavailability property
to a compartment
addRate() adds a modeled rate to a
compartment
addDur() adds modeled duration to a
compartment
addIni() adds an initial value to a
compartment
addLag() adds a lag time to the a
compartment
Add Carlsson Petri (2021) liraglutide PK model
Add Cirincione (2017) exenatide immediate-release PK model
Add a variety of indirect response models
Add a variety of tumor growth inhibition models and move all oncology models into a new model database directory
Add a variety of double-absorption PK models
cp and related cpddSd and
cppropSd were renamed to Cc,
CcAddSd and CcPropSd (fix #70).
Multiple-endpoint models will have the DV column in
the modeldb separated by commas.
rxode2 version 2.0.12
model() and ini() assignment methods.message meta-data.addEta() did not change the
parameter, related to a change in rxode2, was fixed.addEta() detects where to add etas more robustly when
covariates are on the parameter.