INSPEcT_model-class: An S4 class to represent models generated by INSPEcT

In ste-depo/INSPEcT: Modeling RNA synthesis, processing and degradation with RNA-seq data

Description

INSPEcT_model is a class able to store all the results of the modeling of synthesis, processing and degradation rates made via the method modelRates (slot ratesSpecs). It also stores the criteria (slot parameter) to choose between the many models tested for each gene the one that better describes the data and the results. The slot simple is a flag that distinguish wheter the model contains the information of the introns or not. In case not, the flag simple is set to TRUE. Also the method makeSimModel of class INSPEcT-class creates an object of class INSPEcT_model. This object will be used by makeSimDataset to generate a complete simulated data-set, whose classification performance can be tested.

Usage

## S4 method for signature 'INSPEcT_model'
show(object)

Arguments

object

An object of class INSPEcT_model

Details

Methods that apply to INSPEcT_model class are [
AIC
chisqtest
correlationPlot
geneClass
logLik
makeModelRates
makeSimDataset
modelSelection
rocCurve
rocThresholds
show

Value

Method show for objects of class INSPEcT_model returns the number of the genes that have been modeled

Slots

params

A list that defines thresholds and how to perform log likelihood ratio tests

ratesSpecs

A list containing the modeling output

simple

A logical that indicates whether the mode of INSPEcT is simple (no pre-mRNA and degradation rates) or not.

ste-depo/INSPEcT documentation built on Oct. 3, 2020, 9:14 p.m.