RSCU: Relative Synonymous Codon Usage

In GenomicSig: Computation of Genomic Signatures

Relative Synonymous Codon Usage

Description

This function computes the relative frequency of each codon coding for an amino acid.

Usage

RSCU(sequence)

Arguments

sequence

Input as a nucleic acid sequence of characters from fasta file.

Details

RSCU values are the number of times a particular codon is observed, relative to the number of times that the codon would be observed for a uniform synonymous codon usage.

Value

RSCU returns the data frame with all indices.

Author(s)

Dr. Anu Sharma, Dr. Sudhir Srivastava

References

Elek, A. (2018). coRdon: an R package for codon usage analysis and prediction of gene expressivity (Master's thesis, University of Zagreb. Faculty of Science. Department of Biology).

Examples

library(GenomicSig)
RSCU(sequence= system.file("extdata/Nuc_sequence.fasta", package = "GenomicSig"))

GenomicSig documentation built on Sept. 11, 2024, 6:19 p.m.