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Questions tagged [brms]

97 questions
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Installed R package not found in library folder

I try to install whatever package as follows in R (regardless if it is R 4.0 or R 4.2): install.packages("brms") and this install.packages("brms", lib = "path/win-library") I get this: * installing *source* package 'brms' ... ** package 'brms'…
Thomas
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Creating a lme4 multilevel model based off a lavaan structural equation model with latent regression

Background I am trying to convert a lavaan structural equation model into an lmer multi-level item response model. The model has 2 latent factors measured by 3 variables apiece. One of the latent factors is regressed on the other latent factor and a…
socialscientist
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How do you get the posterior estimates from a stanfit object just as you would from a brmsfit object in R?

I am fairly new to R/STAN and I would like to code my own model in STAN code. The problem is that I don't know how to obtain the estimate__ values that conditional_effects(brmsfit) produces when using library(brms). Here is an example of what I…
Os GS
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Load Drools Guided Decision Table to Java List/Map

Hi I was wondering if there is a way to load all the content of the guided decision table to java collection (list/map)? I achieved this by making each rule(row) calling a java method where I add this to a hashmap but performance-wise is really bad…
Kyle
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Random effects structure of nested (gam) BRMS model with binomial outcome in R

I am running a fairly complex model in BRMS in R and would love to get your input and comments on my model specifications and interpretation. I have a nested design in which children (ID) are nested in classes, which are nested in 2 schools. Each…
Luca
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Extracting linear term from a polynomial predictor in a GLM

I am relatively new to both R and Stack overflow so please bear with me. I am currently using GLMs to model ecological count data under a negative binomial distribution in brms. Here is my general model structure, which I have chosen based on fit,…
reco
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Interaction between two factors as Random effects in mixed model in R

I would like to know how to write random effects of two interacting factors. For example, I have 6 species which were planted in 48 plots and replicated in two blocks. There are in total 48 combinations (all possible 1, 2, 3, 5, and 6 species…
Tanvir Shovon
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pp_check for logistic regression in brms R package

I have fitted a multilevel logistic model with brms and afterwards ran pp_check. Can anyone help me interpreting the plot (what is on the horizontal/vertical axes, to start with)? Especially the curve labelled y is unclear to me, as the data are…
user17158871
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mgcv::gam, Error in names(dat) <- object$term : attribut 'names' [2] as to be same length as vector [1]

I want to run a hieratchical GAM in the mgcv package using the gam function. I used the same form of model in brms without problem and I will eventually re-run the same model in brms, but the deadline for an abstract submission in Sunday so I want…
Julien Beaulieu
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Kfold CV in brms

I am trying to use kfold CV as a means of evaluating a model run using brms and I feel like I'm missing something. As a reproducible example, my data are structured as a binary response (0, 1) dependent on the length of an individual. Here is some…
user1997414
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mgcv::k.check equivalent for GAM in brms

I am doing HGAM with the brm function (brms package). For now, I kept the default k = 10, but I want to know if I should set k higher. I know that the function k.check in the mgcv package does that diagnostic, but I can't find any equivalent for…
Julien Beaulieu
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How to follow-up on brms categorical model with emmeans to see whether there are group differences in choosing one particular category over another

I ran a brms model in R with a complex three-way interaction that I am trying to decompose. See below for code. I have a multinomial dependent variable with three levels (happy/angry/fear) and multiple categorical factors: group (three levels;…
user17821937
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brms: how do I setup a model with multiple categorical variables, so that all levels are present and none are baked into the general intercept?

brms: how do I setup a model with multiple categorical variables, so that all levels are present and none are baked into the general intercept? E.g. suppose we have predictors: gender (2 levels) educ (educational level, 3 levels) Doing brm(somey…
mavavilj
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How to infere intermediate values in Drools rules

I've been recommended to use Drools for score calculation. I'm new to this framework, but after a small research I see that it's indeed a good solution, because scoring rules are going to be updated/adjusted frequently and it's easy (it seems) to…
Sebastian Lore
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ggplot with for-loop function

I am running an ordinal logit model with brms package. I want to write the density of the posterior distribution of the parameters. dfpop$pop = factor(df$pop, levels = c("extinct","<10", "<100", "<1000", ">=1000"), ordered = TRUE)…
marie
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