Amino Acid Conversion

Method for converting from biological strings in various formats to an amino acid sequence.

Usage

as_amino_acids(sequence)

# S4 method for AAString
as_amino_acids(sequence)

# S4 method for DNAString
as_amino_acids(sequence)

# S4 method for RNAString
as_amino_acids(sequence)

Arguments

sequence

an object representing an amino acid sequence

Value

a character vector of amino acids

Details

This converts a sequence to a character vector of amino acids. This function is not vectorized. Supported input types are DNAString, RNAString, and character vector.

Examples

orf <- Biostrings::AAString("MERVIN*")
as_amino_acids(orf)
#> [1] "M" "E" "R" "V" "I" "N" "*"

orf <- Biostrings::DNAString("ATGAAATAG")
as_amino_acids(orf)
#> [1] "M" "K" "*"


orf <- Biostrings::RNAString("AUGAAAUAG")
as_amino_acids(orf)
#> [1] "M" "K" "*"