get_rscu-methods: Get Relative Synonymous Codon Usage (rscu) of synonymous...

In Koohoko/SynMut: SynMut: Designing Synonymously Mutated Sequences with Different Genomic Signatures

Get Relative Synonymous Codon Usage (rscu) of synonymous codons

Description

Access the Relative Synonymous Codon Usage rscu

Usage

get_rscu(object, numcode = 1, ...)

## S4 method for signature 'regioned_dna'
get_rscu(object, numcode)

## S4 method for signature 'DNAStringSet'
get_rscu(object, numcode)

Arguments

object	regioned_dna / DNAStringSet / codon usage matrix (vector)
numcode	The ncbi genetic code number for translation. Default value: 1. Details please refer to ?seqinr::translate ("https://rdrr.io/cran/seqinr/man/translate.html").
...	...

Value

matrix

See Also

input_seq, get_region, get_cu, get_du, get_freq

Examples

filepath <- system.file("extdata", "example.fasta", package = "SynMut")
rgd.seq <- input_seq(filepath)
get_rscu(rgd.seq)

Koohoko/SynMut documentation built on Jan. 9, 2023, 12:11 p.m.