Write the JAGS Formula for a Hyde Node

Description

Based on the information provided about the node, an appropriate JAGS model is written in text. This is combined with the other node models to generate the complete network.

Usage

writeJagsFormula(fit, nodes, ...)

## S3 method for class 'cpt'
writeJagsFormula(fit, nodes, ...)

## S3 method for class 'glm'
writeJagsFormula(fit, nodes, ...)

## S3 method for class 'lm'
writeJagsFormula(fit, nodes, ...)

## S3 method for class 'multinom'
writeJagsFormula(fit, nodes, ...)

## S3 method for class 'xtabs'
writeJagsFormula(fit, ...)

Arguments

Details

Methods for different model objects can be written so that this function can be extended as desired.

The resulting formulas are based on the coefficient matrix of the fitted model, and the returned result is the JAGS code representing the regression equation of the model.

In the writeJagsFormula.glm method, appropriate transformations exist for the following combinations:

1. family = binomial; link = logit

2. family = poisson; link = log

3. family = gaussian; link = identity (calls writeJagsFormula.lm)

Author(s)

Jarrod Dalton and Benjamin Nutter

See Also

writeJagsModel, writeNetworkModel

Examples

data(PE, package="HydeNet")
fit <- lm(d.dimer ~ pregnant + pe, data=PE)
writeJagsFormula(fit, nodes=c("d.dimer", "pregnant", "pe"))

fit.glm <- glm(death ~ pe + treat, data=PE, family="binomial")
writeJagsFormula(fit.glm, nodes=c("death", "pe", "treat"))

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

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Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(HydeNet)
Loading required package: nnet
Loading required package: rjags
Loading required package: coda
Linked to JAGS 4.1.0
Loaded modules: basemod,bugs
> png(filename="/home/ddbj/snapshot/RGM3/R_CC/result/HydeNet/writeJagsFormula.Rd_%03d_medium.png", width=480, height=480)
> ### Name: writeJagsFormula
> ### Title: Write the JAGS Formula for a Hyde Node
> ### Aliases: writeJagsFormula writeJagsFormula.cpt writeJagsFormula.glm
> ###   writeJagsFormula.lm writeJagsFormula.multinom writeJagsFormula.xtabs
> 
> ### ** Examples
> 
> data(PE, package="HydeNet")
> fit <- lm(d.dimer ~ pregnant + pe, data=PE)
> writeJagsFormula(fit, nodes=c("d.dimer", "pregnant", "pe"))
[1] "d.dimer ~ 210.24251 + 68.37938*pe + 29.29496*pregnant"
> 
> fit.glm <- glm(death ~ pe + treat, data=PE, family="binomial")
> writeJagsFormula(fit.glm, nodes=c("death", "pe", "treat"))
[1] "death ~ ilogit(-4.18763 + 5.48082*pe + -1.93576*treat)"
Warning message:
attributes are not identical across measure variables; they will be dropped 
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>