Run multiple sequence alignment with MUSCLE

Run multiple sequence alignment with MUSCLE

Usage

run_alignment_with_muscle(fasta_file, quiet = TRUE)

Arguments

fasta_file

sequence file(s) in fasta format, if a vector is provided, all files will be read.

quiet

silent MUSCLE progress

Value

a alignment object

Examples

if (FALSE) { # \dontrun{
file.path = system.file("extdata", "someORF.fa", package = "Biostrings")
run_alignment_with_muscle(file.path)
} # }