Changes in version 0.2.7 (2025-11-03)                  

  - Changing maintainer to Ghislain Vieilledent
    ghislain.vieilledent@cirad.fr.

                 Changes in version 0.2.6 (2023-07-22)                  

  - From 0.2.2 to 0.2.6, there are only minor corrections to pass checks
    on CRAN.

                 Changes in version 0.2.2 (2023-03-02)                  

  - New function jSDM_gaussian for fitting joint species distribution
    models from continuous Gaussian data, including an overdispersion
    parameter.
  - Use of the R package terra instead of raster and sp, which are
    depreciated, in the vignette Estimation of Madagascar's plant
    biodiversity.

                 Changes in version 0.2.1 (2022-03-21)                  

  - Add the possibility to consider only significant correlations in the
    get_residual_cor and plot_residual_cor functions.
  - Documentation corrections

                 Changes in version 0.2.0 (2022-03-08)                  

  - New function jSDM_binomial_probit_sp_constrained which aims to
    improve the convergence of latent variable models fitting by
    selecting the species constrained to have positive values of factor
    loadings $\lambda$ and new vignette Bernoulli probit regression with
    selected constrained species to illustrate its use.
  - New vignette Estimation of Madagascar's plant biodiversity
    available.

                        Changes in version 0.1.2                        

  - Add the possibility of considering an additional hierarchical level
    in the Bayesian models of the jSDM_binomial_probit,
    jSDM_binomial_logit and jSDM_poisson_log functions to take into
    account interactions between species-specific traits and the
    environment in estimating species effects.
  - New vignette Bernoulli probit regression including species traits
    available.
  - Separate the drawing of species effects beta and factor loading
    lambda in the functions jSDM_binomial_probit_block and
    jSDM_binomial_probit_block_long_format renamed jSDM_binomial_probit
    and jSDM_binomial_probit_long_format.
  - New function plot_associations to plot species-species associations.

                        Changes in version 0.1.1                        

  - Use of roxygen2 for documentation and NAMESPACE.
  - Rename jSDM_binomial_probit_block the function jSDM_probit_block.
  - New function jSDM_binomial_probit_block_long_format for fitting
    joint species distribution models from presence-absence data in long
    format able to handle missing observations, multiple visits at sites
    and to integer species traits as explanatory variables.
  - New function jSDM_poisson_log for fitting joint species distribution
    models from abundance data inspired by Hui and Francis K. C. 2016
    Methods in Ecology and Evolution (doi:10.1111/2041-210X.12514).
  - New function jSDM_binomial_logit for fitting joint species
    distribution models from presence-absence data at multiple-visited
    sites using a bayesian inference method inspired by Albert, James H.
    and Chib Siddhartha 1993 Journal of the American Statistical
    Association (doi:10.1080/01621459.1993.10476321).
  - Functions to fit models in which site effects are included as fixed
    effects, as random effects or not included and with or without
    latent variables.
  - New function get_enviro_cor to extract covariances and correlations
    due to shared environmental responses.
  - Completing jSDM-package documentation
  - Add datasets (mosquitos, fungi, eucalypts, birds, mites, aravo).
  - Seven new vignettes (Bayesian inference methods, Poisson log-linear
    regression, Bernoulli probit regression, Bernoulli probit regression
    with missing data and species traits, Binomial logistic regression,
    Running jSDM in parallel, Comparing SDMs and JSDMs and Comparison
    jSDM-Hmsc) are available.
  - Completing and correcting the vignette Comparison jSDM-boral.
  - Adding Code of conduct and Contributing sections.
  - New package website available on GitHub:
    https://ecology.ghislainv.fr/jSDM/.

                 Changes in version 0.1.0 (2019-07-02)                  

  - First version of the jSDM R package
  - Use of Rcpp and C++ code for Gibbs sampling
  - Use of GSL (RcppGSL) for random draws
  - Use of Armadillo (RcppArmadillo) for vector and matrix operations
  - Functions to fit models from Warton et al. 2014 Trends in Ecology
    and Evolution (doi:10.1016/j.tree.2015.09.007).
  - We use pkgdown to build package website.
  - Package website available on GitHub:
    https://ecology.ghislainv.fr/jSDM/.