To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("GeneGA")
In most cases, you don't need to download the package archive at all.
GeneGA
Design gene based on both mRNA secondary structure and codon usage bias using Genetic algorithm
Bioconductor version: 2.14
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 and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("GeneGA")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("GeneGA")
| R Script | GeneGA | |
| Reference Manual |
Details
| biocViews | GeneExpression, Software |
| Version | 1.14.0 |
| In Bioconductor since | BioC 2.7 (R-2.12) |
| License | GPL version 2 |
| Depends | seqinr, hash, methods |
| Imports | |
| Suggests | |
| System Requirements | |
| URL | http://www.tbi.univie.ac.at/~ivo/RNA/ |
| Depends On Me | |
| Imports Me | |
| Suggests Me |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | GeneGA_1.14.0.tar.gz |
| Windows Binary | |
| Mac OS X 10.6 (Snow Leopard) | GeneGA_1.14.0.tgz |
| Mac OS X 10.9 (Mavericks) | GeneGA_1.14.0.tgz |
| Browse/checkout source | (username/password: readonly) |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Counting Reads for Differential Expression (parathyroideSE vignette)
- Annotation
- Annotating Variants
- Annotating Ranges
- Flow Cytometry and other assays
- Candidate Binding Sites for Known Transcription Factors
- Cloud-enabled cis-eQTL search and annotation
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