hmde: Hierarchical Methods for Differential Equations

Wrapper for Stan that offers a number of in-built models to implement a hierarchical Bayesian longitudinal model for repeat observation data. Model choice selects the differential equation that is fit to the observations. Single and multi-individual models are available. O'Brien et al. (2024) <doi:10.1111/2041-210X.14463>.

Version: 1.2.2
Depends: R (≥ 4.1.0)
Imports: methods, dplyr, ggplot2, purrr, Rcpp (≥ 0.12.0), RcppParallel (≥ 5.0.1), rlang, rstan (≥ 2.18.1), rstantools (≥ 2.3.1.1)
LinkingTo: BH (≥ 1.66.0), Rcpp (≥ 0.12.0), RcppEigen (≥ 0.3.3.3.0), RcppParallel (≥ 5.0.1), rstan (≥ 2.18.1), StanHeaders (≥ 2.18.0)
Suggests: knitr, rmarkdown, testthat (≥ 3.0.0), withr, mnormt, here, patchwork, deSolve, cowplot, mixtools, MASS
Published: 2025-10-02
DOI: 10.32614/CRAN.package.hmde
Author: Daniel Falster ORCID iD [aut, ctb], Tess O'Brien ORCID iD [aut, cre, cph], Fonti Kar ORCID iD [ctb], David Warton ORCID iD [aut, ctb]
Maintainer: Tess O'Brien <tess_obrien at fastmail.com>
BugReports: https://github.com/traitecoevo/hmde/issues
License: GPL (≥ 3)
URL: https://traitecoevo.github.io/hmde/
NeedsCompilation: yes
SystemRequirements: GNU make
Materials: README, NEWS
CRAN checks: hmde results

Documentation:

Reference manual: hmde.html , hmde.pdf
Vignettes: canham (source, R code)
constant-growth (source, R code)
Here be dragons (source, R code)
hmde (source, R code)
hmde for Mathematicians (source, R code)
von-bertalanffy (source, R code)

Downloads:

Package source: hmde_1.2.2.tar.gz
Windows binaries: r-devel: hmde_1.2.2.zip, r-release: hmde_1.2.2.zip, r-oldrel: hmde_1.2.2.zip
macOS binaries: r-release (arm64): hmde_1.2.2.tgz, r-oldrel (arm64): hmde_1.2.2.tgz, r-release (x86_64): hmde_1.2.2.tgz, r-oldrel (x86_64): hmde_1.2.2.tgz
Old sources: hmde archive

Linking:

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