Upgrade the transMat object for the multi-state/relsurv setting.

A function that upgrades the transMat object so that the population and excess-related transitions are included in the transition matrix.

Usage

modify_transMat(trans, split.transitions)

Arguments

trans

The original transition matrix (usually generated using function transMat from mstate). Also often present in the msfit object.

split.transitions

The transitions that should be split.

Value

An upgraded transition matrix that contains the population and excess transitions.

See also

transMat

Author

Damjan Manevski damjan.manevski@mf.uni-lj.si

Examples

# transition matrix for illness-death model
trans <- transMat(list(c(2,3),c(4), c(), c()), 
      names = c("Alive", "Relapse","Non-relapse mortality", "Death after relapse"))
split.transitions <- c(2,3)
modify_transMat(trans, split.transitions) 
#>                          to
#> from                      Alive Relapse Non-relapse mortality.p
#>   Alive                      NA       1                       2
#>   Relapse                    NA      NA                      NA
#>   Non-relapse mortality.p    NA      NA                      NA
#>   Non-relapse mortality.e    NA      NA                      NA
#>   Death after relapse.p      NA      NA                      NA
#>   Death after relapse.e      NA      NA                      NA
#>                          to
#> from                      Non-relapse mortality.e Death after relapse.p
#>   Alive                                         3                    NA
#>   Relapse                                      NA                     4
#>   Non-relapse mortality.p                      NA                    NA
#>   Non-relapse mortality.e                      NA                    NA
#>   Death after relapse.p                        NA                    NA
#>   Death after relapse.e                        NA                    NA
#>                          to
#> from                      Death after relapse.e
#>   Alive                                      NA
#>   Relapse                                     5
#>   Non-relapse mortality.p                    NA
#>   Non-relapse mortality.e                    NA
#>   Death after relapse.p                      NA
#>   Death after relapse.e                      NA