In Calvagone/campsis: Generic PK/PD Simulation Platform CAMPSIS

library(campsis)

There are 2 ways to implement a lag time in CAMPSIS:

• in the model: lag time is defined for each compartment
• in the dataset: lag time is defined for each bolus or infusion

In the first case, the simulation engine will take care of the lag time In the second case, CAMPSIS will adapt automatically the time of the dose(s)

Lag time implemented in model

Let's use a 2-compartment model with absorption compartment to illustrate how this can be achieved.

model <- model_suite$nonmem$advan4_trans4

For this example, we're going to define a lag time ALAG1 for this absorption compartment.

First let's create a new parameter ALAG1, log-normally distributed with a median of 2 hours and 20% CV.

model <- model %>% add(Theta(name="ALAG1", value=2))
model <- model %>% add(Omega(name="ALAG1", value=20, type="cv%"))

Now, let's add an equation to the drug model to define ALAG1.

model <- model %>% add(Equation("ALAG1", "THETA_ALAG1*exp(ETA_ALAG1)"))

Finally, we need to tell CAMPSIS that ALAG1 corresponds to a lag time.

model <- model %>% add(LagTime(compartment=1, rhs="ALAG1"))

Our persisted drug model would look like this:

model

Now, let's now give a simple bolus and simulate with and without ALAG1.

ds1 <- Dataset(50) %>%
  add(Bolus(time=0, amount=1000)) %>%
  add(Observations(times=seq(0,24,by=0.5)))

results_alag <- model %>% simulate(dataset=ds1, seed=1)
results_no_alag <- model_suite$nonmem$advan4_trans4 %>% simulate(dataset=ds1, seed=1)
gridExtra::grid.arrange(shadedPlot(results_alag, "CONC"), shadedPlot(results_no_alag, "CONC"), nrow=1)

Lag time implemented in dataset

The same simulation can be performed by defining a lag time to the bolus in the dataset.

For this, we need to sample ALAG1 values. This can be done as follows:

set.seed(1)

distribution <- ParameterDistribution(model=model, theta="ALAG1", omega="ALAG1")
alagValues <- (distribution %>% sample(as.integer(50)))@sampled_values

Then, we can inject them into the dataset.

ds2 <- Dataset(50) %>%
  add(Bolus(time=0, amount=1000, lag=alagValues)) %>%
  add(Observations(times=seq(0,24,by=0.5)))

Here is an overview of the dataset in its table form if we filter on the doses:

ds2 %>% export(dest="RxODE") %>% dosingOnly() %>% head()

Let's now simulate this dataset using the original model.

results_alag <- model_suite$nonmem$advan4_trans4 %>% simulate(dataset=ds2, seed=1)
shadedPlot(results_alag, "CONC")

Calvagone/campsis documentation built on April 17, 2024, 5:33 a.m.