GeneGA

DOI: 10.18129/B9.bioc.GeneGA  

Design gene based on both mRNA secondary structure and codon usage bias using Genetic algorithm

Bioconductor version: Release (3.16)

R based Genetic algorithm for gene expression optimization by considering both mRNA secondary structure and codon usage bias, GeneGA includes the information of highly expressed genes of almost 200 genomes. Meanwhile, Vienna RNA Package is needed to ensure GeneGA to function properly.

Author: Zhenpeng Li and Haixiu Huang

Maintainer: Zhenpeng Li <zpli21 at gmail.com>

Installation

To install this package, start R (version "4.2") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("GeneGA")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("GeneGA")

 

PDF	R Script	GeneGA
PDF		Reference Manual

Details

biocViews	GeneExpression, Software
Version	1.48.0
In Bioconductor since	BioC 2.7 (R-2.12) (12.5 years)
License	GPL version 2
Depends	seqinr, hash, methods
Imports
LinkingTo
Suggests
SystemRequirements
Enhances
URL	http://www.tbi.univie.ac.at/~ivo/RNA/
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	GeneGA_1.48.0.tar.gz
Windows Binary
macOS Binary (x86_64)	GeneGA_1.48.0.tgz
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/GeneGA
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/GeneGA
Bioc Package Browser	https://code.bioconductor.org/browse/GeneGA/
Package Short Url	https://bioconductor.org/packages/GeneGA/
Package Downloads Report	Download Stats