globalDeletion

This function returns a DNAStringSet reduced by all sites containing any gaps ("-", "+", ".") or missing ("N") sites.

globalDeletion(dna)

Arguments

dna

DNAStringSet [mandatory]

Value

DNAStringSet

Author

Kristian K Ullrich

Examples

## define two cds sequences
cds1 <- Biostrings::DNAString("ATGCAACATTGC")
cds2 <- Biostrings::DNAString("ATG---CATTGC")
cds1.cds2.aln <- c(Biostrings::DNAStringSet(cds1),
    Biostrings::DNAStringSet(cds2))
globalDeletion(cds1.cds2.aln)
#> DNAStringSet object of length 2:
#>     width seq
#> [1]     9 ATGCATTGC
#> [2]     9 ATGCATTGC