GeneGA

This is the released version of GeneGA; for the devel version, see GeneGA.

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

Bioconductor version: Release (3.20)

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>

Citation (from within R, enter citation("GeneGA")):

Installation

To install this package, start R (version "4.4") 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")

GeneGA	PDF	R Script
Reference Manual	PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	GeneExpression, Software
Version	1.56.0
In Bioconductor since	BioC 2.7 (R-2.12) (14 years)
License	GPL version 2
Depends	seqinr, hash, methods
Imports
System Requirements
URL	http://www.tbi.univie.ac.at/~ivo/RNA/

Suggests
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report

Package Archives

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

Source Package	GeneGA_1.56.0.tar.gz
Windows Binary (x86_64)
macOS Binary (x86_64)	GeneGA_1.56.0.tgz
macOS Binary (arm64)	GeneGA_1.56.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/GeneGA
Source Repository (Developer Access)	git clone [email protected]:packages/GeneGA
Bioc Package Browser	https://code.bioconductor.org/browse/GeneGA/
Package Short Url	https://bioconductor.org/packages/GeneGA/
Package Downloads Report	Download Stats