popinteger

This function shows the population integer slot from a DNAStringSet or an AAStringSet metadata information.

popinteger(seq)

Arguments

seq

DNAStringSet or AAStringSet [mandatory]

Value

population integer from metadata

See also

addpop2string

Author

Kristian K Ullrich

Examples

## load example sequence data
data(iupac, package="MSA2dist")
iupac.aa <- iupac |> cds2aa(shorten = TRUE)
## create poplist
poplist <- list(FRA = grep("Mmd.FRA", names(iupac)),
    GER = grep("Mmd.GER", names(iupac)),
    IRA = grep("Mmd.IRA", names(iupac)),
    AFG = grep("Mmm.AFG", names(iupac)))
iupac.aa <- iupac.aa |> addpop2string(poplist)
popinteger(iupac.aa)
#> $FRA
#> [1] 1 2 3 4 5 6 7 8
#> 
#> $GER
#> [1]  9 10 11 12 13 14 15 16
#> 
#> $IRA
#> [1] 17 18 19 20 21 22 23 24
#> 
#> $AFG
#> [1] 25 26 27 28 29 30
#>