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cubfits  

Codon Usage Bias Fits
View on CRAN: Click here


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

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

Install by package version:
library("remotes")
install_version("cubfits", "0.1-4")



Attach the package and use:
library("cubfits")
Maintained by
Wei-Chen Chen
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2014-05-19
Latest Update: 2021-11-07
Description:
Estimating mutation and selection coefficients on synonymous codon bias usage based on models of ribosome overhead cost (ROC). Multinomial logistic regression and Markov Chain Monte Carlo are used to estimate and predict protein production rates with/without the presence of expressions and measurement errors. Work flows with examples for simulation, estimation and prediction processes are also provided with parallelization speedup. The whole framework is tested with yeast genome and gene expression data of Yassour, et al. (2009) .
How to cite:
Wei-Chen Chen (2014). cubfits: Codon Usage Bias Fits. R package version 0.1-4, https://cran.r-project.org/web/packages/cubfits
Previous versions and publish date:
0.1-0 (2014-05-19 07:14), 0.1-2 (2016-01-24 21:39), 0.1-3 (2017-04-30 23:43)
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