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Slice alignment

Source: R/extract_seqs.R
slice_aln.Rd

Slice alignment

Usage

slice_aln(aln, start, end, seqs = labels(aln))

Arguments

aln

alignment

start

start position in alignment

end

end position in alignment

seqs

sequences to keep (default: labels(aln), i.e. all sequences)

Value

sliced alignment in ape::DNAbin format

Examples

slice_aln(hxb2_cons_founder, 1, 100)
#> 3 DNA sequences in binary format stored in a matrix.
#> 
#> All sequences of same length: 100 
#> 
#> Labels:
#> B.FR.83.HXB2_LAI_IIIB_BRU.K03455
#> CON_B(1295)
#> B.US.2011.DEMB11US006.KC473833
#> 
#> Base composition:
#>    a    c    g    t 
#> 0.32 0.28 0.19 0.21 
#> (Total: 300 bases)