R Under development (unstable) (2025-09-02 r88773 ucrt) -- "Unsuffered Consequences"
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> 
> require(kinship2)
Loading required package: kinship2
Loading required package: Matrix
Loading required package: quadprog
Warning: kinship2 package is deprecated for R <= 4.5; switch functionality to Pedixplorer from BioConductor> #
> # Here is a case where the levels fail to line up properly
> #
> 
> #data(testped2)
> data(sample.ped)
> 
> # rearrange the founders to get a nicer plot
> df1<- sample.ped[sample.ped$ped==1,]
> 
> ped1 <- with(df1, pedigree(id, father, mother, sex, affected))
> 
> #plot(ped1)
> 
> df1reord <- df1[c(35:41,1:34),]
> ped1reord <- with(df1reord, pedigree(id, father, mother, 
+        sex, affected=affected))
> 
> 
> #plot(ped1reord, col=df1reord$avail+1)
> 
> 
> # Two brothers married two sisters, which is currently "too much" for
> #  the kindepth routine.
> 
> proc.time()
   user  system elapsed 
   0.78    0.10    0.87