Other packages > Find by keyword >

vhcub  

Virus-Host Codon Usage Co-Adaptation Analysis
View on CRAN: Click here


Download and install vhcub package within the R console
Install from CRAN:
install.packages("vhcub")

Install from Github:
library("remotes")
install_github("cran/vhcub")

Install by package version:
library("remotes")
install_version("vhcub", "1.0.0")



Attach the package and use:
library("vhcub")
Maintained by
Ali Mostafa Anwar
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2019-11-15
Latest Update: 2019-11-15
Description:
Analyze the co-adaptation of codon usage between a virus and its host, calculate various codon usage bias measurements as: effective number of codons (ENc) Novembre (2002) <doi:10.1093/oxfordjournals.molbev.a004201>, codon adaptation index (CAI) SharpandLi (1987) <doi:10.1093/nar/15.3.1281>, relativecodon deoptimization index (RCDI) Puigbò et al (2010) <doi:10.1186/1756-0500-3-87>, similarity index (SiD) Zhou et al (2013) <doi:10.1371/journal.pone.0077239>,synonymous codon usage orderliness (SCUO) Wan et al (2004) <doi:10.1186/1471-2148-4-19> and, relative synonymouscodon usage (RSCU) Sharp et al (1986) <doi:10.1093/nar/14.13.5125>. Also, it provides a statistical dinucleotide over- and underrepresentation with three different models. Implement several methods for visualization of codon usage as ENc.GC3plot() and PR2.plot().
How to cite:
Ali Mostafa Anwar (2019). vhcub: Virus-Host Codon Usage Co-Adaptation Analysis. R package version 1.0.0, https://cran.r-project.org/web/packages/vhcub
Previous versions and publish date:
No previous versions
Other packages that cited vhcub R package
View vhcub citation profile
Other R packages that vhcub depends, imports, suggests or enhances
Downloads during the last 30 days
Get rewarded with contribution points by helping add
Reviews / comments / questions /suggestions ↴↴↴

Today's Hot Picks in Authors and Packages

trapezoid  
The Trapezoidal Distribution
The trapezoid package provides 'dtrapezoid', 'ptrapezoid', 'qtrapezoid', and 'rtrapezoid' functions ...
Download / Learn more Package Citations See dependency  
rankdist  
Distance Based Ranking Models
Implements distance based probability models for ranking data. The supported distance metrics inclu ...
Download / Learn more Package Citations See dependency  
gmt  
Interface Between GMT Map-Making Software and R
Interface between the GMT map-making software and R, enabling the user to manipulate geographic dat ...
Download / Learn more Package Citations See dependency  
nextGenShinyApps  
Craft Exceptional 'R Shiny' Applications and Dashboards with Novel Responsive Tools
Nove responsive tools for designing and developing 'Shiny' dashboards and applications. The scripts ...
Download / Learn more Package Citations See dependency  
hydropeak  
Detect and Characterize Sub-Daily Flow Fluctuations
An important environmental impact on running water ecosystems is caused by hydropeaking - the disco ...
Download / Learn more Package Citations See dependency  
EasyDescribe  
A Convenient Way of Descriptive Statistics
Descriptive Statistics is essential for publishing articles. This package can perform descriptive s ...
Download / Learn more Package Citations See dependency  

22,187

R Packages

188,753

Dependencies

55,244

Author Associations

22,188

Publication Badges

© Copyright 2022 - present. All right reserved, rpkg.net. Contact Us / Suggestions / Concerns