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Questions tagged [rjags]

149 questions
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Constraining Bayesian multinomial logistic in R via JAGS

I am learning how to fit Bayesian multinomial logistic models in R. This is my first attempt at using JAGS via rjags. The code illustrates with a MWE what I am trying to do: ## simulate data set.seed(123) n=2000 rr<-rmultinom(n, 3,…
Ashley Naimi
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JAGS: Use cell matrix as data input for excluding NA

Below is my model and example data I would use. There are some NA in the data that I needed to set priors to generate numbers but this way may cause some errors. I was wondering if I could just let JAGS skip the NA so like have a matrix with…
Kenny
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Error: Attempt to redefine node in linear regression

I have fitted following simple linear regression Bayesian model using rjags. I was able to run the model by specifying all the predictors separately(like for a lm object). Now I want to learn how to specify the predictors by introducing them as a…
student_R123
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JAGS/BUGS error - Possible directed cycle involving some or all of the following nodes

My dataset is about penalty kicks and contains 106 rows and the features are : The kick direction The player's strong foot HomeAway that tells us if the player is playing in his town or away I would like to perform a multinomial logistic…
ShilZoyer
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What is the algorithm of jags with discrete likelihood and continuous prior

I am trying to understanding the following rjags code. library(rjags) set.seed(1) N <- 10 p <- rep(10,N) cat(" model { for (i in 1:N) { p[i] ~ dpois(lambda) } lambda <- 2*exp(-2*alpha*3)/(2*pow(4,2)) alpha ~…
Ke Qin
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RJAGS unable to find appropriate sampler when constraining covariance matrix

I am using RJAGS to make inference on mean and covariance matrix from some data and I noticed that whenever I put a constraint in the precision matrix I receive the following error message Error in jags.model(file = "model.tmp", data = data) :…
arsenio
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Suppress JAGS "value out of range" warnings in R

I'm running a large number of JAGS models in R using the jags function of the R2jags package (which uses the rjags package to run JAGS). I get a lot of warnings printed in the console: value out of range in 'lgamma' Printing these warnings seems…
Scransom
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rjags error Error in mat[, "deviance"] : subscript out of bounds

I'm running a model in R using the package 'jagsUI' and the model begins to run for a little bit, but then I get the message "Error in mat[, "deviance"] : subscript out of bounds In addition: Warning message: In order.params(samples,…
Curtis
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predicting with zoib models (MCMC / RJags)

I am using the zoib package in R to build zero-inflated beta regression models. I am looking for a simple way to use the models that zoib produces to calculate a predicted response for a new dataset. By "new dataset" I mean data not used to build…
bear
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Define conditional linear Gaussian network using rjags

I am struggling to define a conditional linear Gaussian Bayesian network using rjags. (A clg BN is defined by a continuous child node (outcome) having both a continuous normal and a discrete parent (predictors)) For the net below, A is discrete, D…
user2957945
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Translating glmer (binomial) into jags to include a correlated random effect (time)

Context: I have a 12 item risk assessment where individuals are given a rating from 0-4 (4 being the highest risk).  The risk assessment can be done multiple times for each individual (max = 19, but most only have less than 5 measurements). The…
Helen
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updated Rstudio and R, now unable to install rjags

I just updated Rstudio (2023.03.0 Build 386) and R (R version 4.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle"). I am trying to install rjags, R2jags, and simmR. Everything else is dependent on rjags. When intstalling rjags I get the error: Error:…
vermicellion
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How do I correct the error: RUNTIME ERROR: Compilation error on line 4. Index out of range taking subset of y

I've built a linear regression model using rjags but I am getting a runtime error saying the index is out of range. I've looked for advice online but can't find anything that I understand or addresses this exact problem. Here is my…
Louisa Wareing
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"Failed to set trace monitor for deviance There are no observed stochastic nodes" error when running JAGS model in R

I'm trying to get an N-mixture model to run in JAGS for a stats class that I'm currently in. However, I keep getting the error "Failed to set trace monitor for deviance There are no observed stochastic nodes" whenever I try to run the model. At the…
Josh
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Jags: Attempt to redefine node error, mixed effect regression

I want to perform a mixed effect regression in rjags, with a random slope and intercept. I define the following toy dataset: library(ggplot2) library(data.table) global_slope <- 1 global_int <- 1 Npoints_per_group <- 50 N_groups <- 10 pentes <-…
denis
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