superkits/CorMut: Detect the correlated mutations based on selection pressure

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. The reference sequence should be the first sequence of the sequence file, and does not allow the presence of gap.

Getting started

Package details

AuthorZhenpeng Li
Bioconductor views Sequencing
MaintainerZhenpeng Li<[email protected]>
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
superkits/CorMut documentation built on May 8, 2019, 11:59 p.m.