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#An example of model definition for GUI_gems
#Names of the variables are important, they are being read into the model based on the names.
numStates <- 6
statesNames <- c("CHBV_nEFT",
"CHBV_EFT",
"clearance",
"Cirrhosis",
"HCC",
"death"
)
hfNames <- array(rep("impossible", 36), dim = c(6,6)) #creates an array 6x6,
#all transitions impossible
hfNames[1:5,6] <- rep("Exponential",5)
hfNames[1,2] <- "Exponential"
hfNames[1:2,3] <- rep("Weibull",2)
hfNames[1:2,4] <- rep("Exponential",2)
hfNames[4,5] <- "Weibull"
hfNames[col(hfNames)<=row(hfNames)]<-"NULL" #only transmissions to the states
#with higher numbers are allowed
rownames(hfNames) <- statesNames
colnames(hfNames) <- statesNames
M <- makeM(hfNames)
params <- generateParameterMatrix(M)
params[[1,2]] <- list(rate = 0.7) # an example parameter for exponential hazard function
params[[1,3]] <- list(shape = 0.3, scale = 1.2) # an example parameters for Weibull hazard function
params[[1,3]] <- list(shape = 0.2, scale = 1.3)
params[[1,4]] <- list(rate = 0.02)
params[[2,4]] <- list(rate = 0.01)
params[[4,5]] <- list(shape = 0.5, scale = 0.7)
params[[1,6]] <- list(rate = 0.002)
params[[2,4]] <- list(rate = 0.003)
params[[3,5]] <- list(rate = 0.003)
params[[4,6]] <- list(rate = 0.04)
params[[5,6]] <- list(rate = 0.07)
cohortSize <- 200
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