refseq_AAseq: Extract the amino acid sequence into a Biostrings object
In refseqR: Common Computational Operations Working with RefSeq Entries (GenBank)
refseq_AAseq R Documentation
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 sequence(s) 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")
refseqR documentation built on Oct. 30, 2024, 1:06 a.m.
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| refseq_AAseq | R Documentation |
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 sequence(s) 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")
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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