jboyko
commented
2 years ago Hi Adnan,
Thanks for pointing this out! This was a bug that we had fixed, but apparently has now reappeared after a recent version change. I've pushed the changes to the newest github version, so if you install the newest version the functions will be working. But, I'll also write them out here if you'd rather implement them in your code manually.
rate_mat <- matrix(c(
NA, 5, 9, 13, 17,
1, NA, 10, 14, 18,
2, 6, NA, 15, 19,
3, 7, 11, NA, 20,
4, 8, 12, 16, NA), 5, 5, TRUE)
dropStateMatPars <- function(StateMat, Pars){
for(i in Pars){
StateMat[StateMat==i] <- 0
}
StateMat[StateMat == 0] <- NA
pars <- unique(na.omit(as.vector(StateMat)))
for(i in 1:length(pars)){
StateMat[StateMat == pars[i]] <- i
}
return(StateMat)
}
equateStateMatPars <- function(StateMat, ParsList){
if(!class(ParsList) == "list"){
ParsList <- list(ParsList)
}
for(i in 1:length(ParsList)){
min_par_i <- min(ParsList[[i]])
StateMat[as.vector(StateMat) %in% ParsList[[i]]] <- min_par_i
}
StateMat[StateMat == 0] <- NA
pars <- unique(na.omit(as.vector(StateMat)))
for(i in 1:length(pars)){
StateMat[StateMat == pars[i]] <- i
}
return(StateMat)
}
new_mat <- dropStateMatPars(StateMat = rate_mat, Pars = c(3,4,13,14,17,18))
new_mat_2 <- equateStateMatPars(new_mat, list(c(11,9,10), c(1,2,3,4)))
Hi James, I am now observing odd behavior with this new syntax for dropStateMatPars.
I essentially want to take this matrix and remove some of the rates (i.e. make N/A), specifically rates 3,4,13,14,17,18
This is the original matrix. recon01b[["index.mat"]] 1 2 3 4 5 1 NA 5 9 13 17 2 1 NA 10 14 18 3 2 6 NA 15 19 4 3 7 11 NA 20 5 4 8 12 16 NA
Using this syntax
rate.matbr<-dropStateMatPars(StateMat = recon01b$index.mat, Pars = c(3,4,13,14,17,18))
I get this rate.matbr 1 2 3 4 5 1 NA 4 8 3 3 2 1 NA 9 3 3 3 2 5 NA 12 14 4 3 6 10 NA 15 5 3 7 11 13 NA
Instead of changing to N/A they all get allocated “3”
Not sure what I am doing wrong.
Thanks for your help.
Adnan