GeneGA

This is the development version of GeneGA; for the stable release version, see GeneGA.

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


Bioconductor version: Development (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")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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

Details

biocViews GeneExpression, Software
Version 1.55.0
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/
See More
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_1.55.0.tar.gz
Windows Binary
macOS Binary (x86_64) GeneGA_1.55.0.tgz
macOS Binary (arm64) GeneGA_1.55.0.tgz
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