summary.Rcpp_Genome

A genome object initialized with <code><a rd-options="" href="/link/initializeGenomeObject?package=AnaCoDa&version=0.1.4.4" data-mini-rdoc="AnaCoDa::initializeGenomeObject">initializeGenomeObject</a></code>.

object

Optional, additional arguments to be passed to the main summary function 
that affect the summary produced.

<code>summary</code> summarizes the description of a genome, such as number of genes and average gene length.

Is a collection of models to analyze genome scale codon
data using a Bayesian framework. Provides visualization
routines and checkpointing for model fittings. Currently
published models to analyze gene data for selection on codon
usage based on Ribosome Overhead Cost (ROC) are: ROC (Gilchrist
et al. (2015) <doi:10.1093/gbe/evv087>), and ROC with phi
(Wallace & Drummond (2013) <doi:10.1093/molbev/mst051>). In
addition 'AnaCoDa' contains three currently unpublished models.
The FONSE (First order approximation On NonSense Error) model
analyzes gene data for selection on codon usage against of
nonsense error rates. The PA (PAusing time) and PANSE (PAusing
time + NonSense Error) models use ribosome footprinting data to
analyze estimate ribosome pausing times with and without
nonsense error rate from ribosome footprinting data.

Cedric Landerer

AnaCoDa

Analysis of Codon Data under Stationarity using a Bayesian
Framework

summary.Rcpp_Genome function

A genome object initialized with <code><a rd-options='' href='initializeGenomeObject'>initializeGenomeObject</a></code>.

summary.Rcpp_Genome: Summary of Genome

Description

Usage

Arguments

Value