dmrfit: Scalable Bayesian Inference for Discrete Markov Random Fields
Estimation of discrete Markov random fields through the pseudo-likelihood, for both Ising models (Ising (1925) <doi:10.1007/BF02980577>) and ordinal Markov random fields (Marsman et al. (2025) <doi:10.1017/psy.2024.4>). Point estimates, either maximum pseudo-likelihood or maximum a posteriori, are obtained through a trust region optimization algorithm, with robust standard errors from the Godambe-Huber-White (GHW, or sandwich) estimator, for both full and constrained network structures. Bayesian inference corrects the pseudo-posterior through coordinate rescaling (Arena and Marsman (2026) <doi:10.48550/arXiv.2601.17205>), which matches its covariance to the GHW covariance, and samples from it with the Fisher adaptive Metropolis-adjusted Langevin algorithm (Titsias (2024) <doi:10.48550/arXiv.2305.14442>). For comparison, the posterior based on the full likelihood can also be sampled, exactly for small networks or with the double Metropolis-Hastings algorithm (Liang (2010) <doi:10.1080/00949650902882162>). Savage-Dickey Bayes factors test each pairwise interaction, computed either by sampling importance resampling (Skare et al. (2003) <doi:10.1111/1467-9469.00360>) or from the posterior draws.
| Version: | 0.1.0 |
| Depends: | R (≥ 4.0.0) |
| Imports: | ggplot2, grDevices, graphics, parallel, Rcpp (≥ 1.1.0), stats |
| LinkingTo: | Rcpp, RcppArmadillo, RcppProgress |
| Suggests: | igraph, knitr, rmarkdown, tinytest |
| Published: | 2026-10-18 |
| DOI: | 10.32614/CRAN.package.dmrfit (may not be active yet) |
| Author: | Giuseppe Arena 
[aut, cre] |
| Maintainer: | Giuseppe Arena <g.arena at uva.nl> |
| BugReports: | https://github.com/jupepis/dmrfit/issues |
| License: | MIT + file LICENSE |
| Copyright: | The dataset 'rads2' is licensed under CC BY 4.0; see file
COPYRIGHTS. dmrfit copyright details |
| URL: | https://jupepis.github.io/dmrfit/, https://github.com/jupepis/dmrfit |
| NeedsCompilation: | yes |
| CRAN checks: | dmrfit results |
Documentation:
| Reference manual: | dmrfit.html , dmrfit.pdf |
| Vignettes: |
Analyzing a psychological network with dmrfit (source) |
Downloads:
| Package source: | dmrfit_0.1.0.tar.gz |
| Windows binaries: | r-devel: not available, r-release: not available, r-oldrel: not available |
| macOS binaries: | r-release (arm64): not available, r-oldrel (arm64): dmrfit_0.1.0.tgz, r-release (x86_64): not available, r-oldrel (x86_64): not available |
Linking:
Please use the canonical form https://CRAN.R-project.org/package=dmrfit to link to this page.