To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("CorMut")
In most cases, you don't need to download the package archive at all.
CorMut
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Detect the correlated mutations based on selection pressure
Bioconductor version: Release (3.5)
CorMut provides functions for computing kaks for individual sites or specific amino acids and detecting correlated mutations among them. Three methods are provided for detecting correlated mutations ,including conditional selection pressure, mutual information and Jaccard index. 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>
Citation (from within R,
enter citation("CorMut")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://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")
| R Script | CorMut | |
| Reference Manual |
Details
| biocViews | Sequencing, Software |
| Version | 1.18.0 |
| In Bioconductor since | BioC 2.11 (R-2.15) (5 years) |
| License | GPL-2 |
| Depends | seqinr, igraph |
| Imports | |
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| Suggests | |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | |
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| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | CorMut_1.18.0.tar.gz |
| Windows Binary | CorMut_1.18.0.zip |
| Mac OS X 10.11 (El Capitan) | CorMut_1.18.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/CorMut |
| Package Short Url | http://bioconductor.org/packages/CorMut/ |
| Package Downloads Report | Download Stats |
Documentation »
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