Using msaR (original) (raw)

# read some sequences from a Multiple sequence alignment file.
proteinseqfile <- system.file("sequences","phosphoproteins.aln", package="msaR")

# loading AA with ape. Can also use Biostrings
proteins <- ape::read.FASTA(proteinseqfile, type="AA")
                            
# note the seqlogo will show up in your widget but 
# not the vignette static output
msaR(proteins, menu=F, overviewbox = F,  colorscheme = "clustal")