| AAString-class {Biostrings} | R Documentation |
A AAString object allows efficient storage
and manipulation of a long amino acid sequence.
The AAString class derives directly from the
BString class (with no additional slot).
All functions and methods described in the
BString man page also work
with a AAString object (inheritance).
Unlike a BString object that allows storage
of any non-empty string (based on a single-byte character set)
a AAString object can only store a non-empty string
based on the AAString alphabet (see below).
This alphabet contains all letters from the
Single-Letter Amino Acid Code (see AMINO_ACID_CODE)
+ the stop letter "*".
It is stored in the AA_ALPHABET constant (character vector).
The alphabet method also returns
AA_ALPHABET when applied to a AAString
object and is provided for convenience only.
In the code snippet below,
src can be a character vector
or a BString (or derived) object.
AAString(src):
[TODO: Document me]
H. Pages
BString, AMINO_ACID_CODE,
BStringViews
AA_ALPHABET
a <- AAString("MARKSLEMSIR*")
length(a)
alphabet(a)