XdeMcmc-class: Class for storing output from the Bayesian model

In XDE: XDE: a Bayesian hierarchical model for cross-study analysis of differential gene expression

Description

Stores output, including the last iteration of the MCMC.

Objects from the Class

Objects can be created by calls of the form new("XdeMcmc", studyNames, featureNames, iterations, seed, output, directory, lastMcmc, posteriorAvg, bayesianEffectSize).

Slots

studyNames:

Object of class "character"

featureNames:

Object of class "character"

iterations:

Object of class "numeric"

directory:

Object of class "character"

seed:

Object of class "integer"

output:

Object of class "numeric"

lastMcmc:

Object of class "environment"

posteriorAvg:

Object of class "NULLorMatrix"

bayesianEffectSize:

Object of class "NULLorMatrix"

Methods

$

signature(x = "XdeMcmc")

.standardizedDelta

signature(object = "XdeMcmc")

bayesianEffectSize

signature(object = "XdeMcmc")

bayesianEffectSize<-

signature(object = "XdeMcmc", value = "matrix")

calculatePosteriorAvg

signature(object = "XdeMcmc"): See calculatePosteriorAvg

directory

signature(object = "XdeMcmc")

featureNames

signature(object = "XdeMcmc")

initialize

signature(.Object = "XdeMcmc")

iterations

signature(object = "XdeMcmc")

lastMcmc

signature(object = "XdeMcmc")

nrow

signature(x = "XdeMcmc")

output

signature(object = "XdeMcmc")

plot

signature(x = "XdeMcmc")

posteriorAvg

signature(object = "XdeMcmc")

seed

signature(object = "XdeMcmc")

show

signature(object = "XdeMcmc")

studyNames

signature(object = "XdeMcmc")

Author(s)

R. Scharpf

See Also

The class for storing the data: ExpressionSetList-class and the class that contains default options for fitting the Bayesian model: XdeParameter-class

Examples

##See XDE vignette:
## Not run: 
openVignette(package="XDE")

## End(Not run)

XDE documentation built on Nov. 8, 2020, 5:02 p.m.