source("http://bioconductor.org/biocLite.R")
biocLite("CorMut")

CorMut

Detect the correlated mutations based on selection pressure

Bioconductor version: 2.13

CorMut provides functions for computing kaks for individual sites or specific amino acids and detecting correlated mutations among them. Two methods are provided for detecting correlated mutations ,including conditional selection pressure and mutual information. The computation consists of two steps: First, the positive selection sites are detected; Second, the mutation correlations are computed among the positive selection sites. Note that the first step is optional. Meanwhile, CorMut facilitates the comparison of the correlated mutations between two conditions by the means of correlated mutation network.

Author: Zhenpeng Li, Yang Huang, Yabo Ouyang, Yiming Shao, Liying Ma

Maintainer: Zhenpeng Li<zpli21 at gmail.com>

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("CorMut")

Documentation

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

browseVignettes("CorMut")

 

PDF	R Script	CorMut
PDF		Reference Manual

Details

biocViews	Bioinformatics, Sequencing, Software
Version	1.4.0
In Bioconductor since	BioC 2.11 (R-2.15)
License	GPL-2
Depends	methods, Biostrings, seqinr, igraph
Imports
Suggests
System Requirements
URL
Depends On Me
Imports Me
Suggests Me

Package Archives

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

Package Source	CorMut_1.4.0.tar.gz
Windows Binary	CorMut_1.4.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	CorMut_1.4.0.tgz
Browse/checkout source	(username/password: readonly)
Package Downloads Report	Download Stats