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New package cubfits with initial version 0.1-0
Package: cubfits
: c(person("Wei-Chen", "Chen", role = c("aut", "cre"), email = person("Russell", "Zaretzki", role = "aut"), person("William", "Howell", role = "aut"), person("Drew", "Schmidt", role = "aut"), person("Michael", "Gilchrist", role = "aut"), person("Students", "REU13", role = "ctb"))
Depends: R(>= 3.0.0), methods
Suggests: seqinr, VGAM, EMCluster
Enhances: pbdMPI (>= 0.2-2), parallel
LazyLoad: yes
LazyData: yes
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 (2009).
License: Mozilla Public License 2.0
URL:
: Wei-Chen Chen [aut, cre], Russell Zaretzki [aut], William Howell [aut], Drew Schmidt [aut], Michael Gilchrist [aut], Students REU13 [ctb]
Maintainer: Wei-Chen Chen
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-05-19 07:14:28
Package: cubfits
: c(person("Wei-Chen", "Chen", role = c("aut", "cre"), email = person("Russell", "Zaretzki", role = "aut"), person("William", "Howell", role = "aut"), person("Drew", "Schmidt", role = "aut"), person("Michael", "Gilchrist", role = "aut"), person("Students", "REU13", role = "ctb"))
Depends: R(>= 3.0.0), methods
Suggests: seqinr, VGAM, EMCluster
Enhances: pbdMPI (>= 0.2-2), parallel
LazyLoad: yes
LazyData: yes
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 (2009).
License: Mozilla Public License 2.0
URL:
: Wei-Chen Chen [aut, cre], Russell Zaretzki [aut], William Howell [aut], Drew Schmidt [aut], Michael Gilchrist [aut], Students REU13 [ctb]
Maintainer: Wei-Chen Chen
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-05-19 07:14:28
