Package: dmrfit
Date: 2026-10-07
Type: Package
Title: Scalable Bayesian Inference for Discrete Markov Random Fields
Version: 0.1.0
Authors@R: c(person(given = "Giuseppe",
             family = "Arena",
             role = c("aut", "cre"),
             email = "g.arena@uva.nl",
             comment = c(ORCID = "0000-0001-5204-3326")))
Description: 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.
License: MIT + file LICENSE
Copyright: The dataset 'rads2' is licensed under CC BY 4.0; see file
        COPYRIGHTS.
URL: https://jupepis.github.io/dmrfit/,
        https://github.com/jupepis/dmrfit
BugReports: https://github.com/jupepis/dmrfit/issues
Depends: R (>= 4.0.0)
Imports: ggplot2, grDevices, graphics, parallel, Rcpp (>= 1.1.0), stats
Suggests: igraph, knitr, rmarkdown, tinytest
VignetteBuilder: knitr
LinkingTo: Rcpp, RcppArmadillo, RcppProgress
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.3.3
NeedsCompilation: yes
Packaged: 2026-10-18 18:24:37 UTC; root
Author: Giuseppe Arena [aut, cre] (ORCID:
        <https://orcid.org/0000-0001-5204-3326>)
Maintainer: Giuseppe Arena <g.arena@uva.nl>
Repository: https://cran.r-universe.dev
Date/Publication: 2026-10-18 18:12:55 UTC
RemoteUrl: https://github.com/cran/dmrfit
RemoteRef: HEAD
RemoteSha: c157c813656f8d89e4c7a5e43791b797da538311