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vhica (version 0.2.4)

Vertical and Horizontal Inheritance Consistence Analysis

Description

The "Vertical and Horizontal Inheritance Consistence Analysis" method is described in the following publication: "VHICA: a new method to discriminate between vertical and horizontal transposon transfer: application to the mariner family within Drosophila" by G. Wallau. et al. (2016) . The purpose of the method is to detect horizontal transfers of transposable elements, by contrasting the divergence of transposable element sequences with that of regular genes.

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Version

Install

install.packages('vhica')

Monthly Downloads

560

Version

0.2.4

License

GPL-2

Maintainer

Arnaud Le Rouzic

Last Published

April 5th, 2016

Functions in vhica (0.2.4)

image.vhica

Consistency matrix for a transposable element in the VHICA analysis.
div

Computation of the synonymous divergence between sequences
CUB

Computes the Codon Usage Bias of DNA sequences
plot.vhica

Plots a VHICA regression between two species.
read.vhica

Reads divergence and codon usage data files for the VHICA method.
vhica-package

Vertical and Horizontal Inheritance Consistence Analysis