refseq_AAseq {refseqR}

Extract the amino acid sequence into a Biostrings object

Description

refseq_AAseq() Parses a single/multiple protein accessions (RefSeq format) and extract the amino acid sequences into a AAStringSet object.

Depending on the function, available accessions in refseqR include RefSeq models with the prefixes XM_ (mRNA), XR_ (non-coding RNA), and XP_ (protein), as well as subsequently curated RefSeq records with NM_, NR_, or NP_ accession prefixes.

Usage

refseq_AAseq(accession)

Arguments

accession

A character string containing a single/multiple accession ids.

Value

An object of AAStringSet class.

Author(s)

Jose V. Die

Examples

accession = c("XP_004487758", "XP_004488550", "XP_004501961")
my_aa <- refseq_AAseq(accession)
# Now, the `AAStringSet`can be easily used to make a fasta file :
# writeXStringSet(x= my_aa, filepath = "aa_result")