DESCRIPTION

Package: ibis.iSDM
Type: Package
Title: Modelling framework for integrated biodiversity distribution scenarios
Version: 0.1.5
Authors@R: 
    c(person(given = "Martin",
           family = "Jung",
           role = c("aut", "cre", "cph"),
           email = "jung@iiasa.ac.at",
           comment = c(ORCID = "0000-0002-7569-1390")),
      person(given = "Maximilian H.K.",
           family = "Hesselbarth",
           role = c("ctb"),
           email = "hesselbarth@iiasa.ac.at",
           comment = c(ORCID = "0000-0003-1125-9918"))
      )
Maintainer: Martin Jung <jung@iiasa.ac.at>
Description: Integrated framework of modelling the distribution of species and 
  ecosystems in a suitability framing. This package allows the estimation of integrated 
  species distribution models (iSDM) based on several sources of evidence and provided
  presence-only and presence-absence datasets. It makes heavy use of point-process models
  for estimating habitat suitability and allows to include spatial latent effects and 
  priors in the estimation. To do so 'ibis.iSDM' supports a number of engines for 
  Bayesian and more non-parametric machine learning estimation. Further, the 'ibis.iSDM' 
  is specifically customized to support spatial-temporal projections of habitat suitability 
  into the future.
Language: en-GB
License: CC BY 4.0
Encoding: UTF-8
Additional_repositories: https://inla.r-inla-download.org/R/testing
Imports: 
    R6 (>= 2.5.0),
    assertthat (>= 0.2.0),
    doFuture (>= 0.12.2),
    future (>= 1.23.0),
    parallelly (>= 1.30.0),
    parallel,
    foreach,
    dplyr,
    geodist,
    ggplot2,
    graphics,
    methods,
    Matrix,
    ncdf4,
    posterior,
    sf (>= 1.0),
    stars (>= 0.5),
    stats,
    terra (>= 1.7-10), 
    tibble (>= 2.0.0),
    uuid, 
    utils
Depends:
    R (>= 4.1.0)
Suggests:
    abind,
    BoomSpikeSlab (>= 1.2.4),
    Boruta,
    covr,
    cubelyr,
    dbarts (>= 0.9-22),
    deldir,
    ellipsis,
    glmnet (>= 4.1),
    glmnetUtils,
    gnlm,
    geosphere,
    inlabru (>= 2.10.0),
    fmesher (>= 0.1.7),
    igraph,
    knitr,
    mboost,
    modEvA,
    matrixStats,
    ncmeta,
    progress,
    pdp,
    rmarkdown,
    lubridate (>= 1.9.0),
    rstan (>= 2.21.0),
    rstantools (>= 2.1.1),
    testthat (>= 3.0.0),
    xgboost
URL: https://iiasa.github.io/ibis.iSDM/
BugReports: https://github.com/iiasa/ibis.iSDM/issues
RoxygenNote: 7.3.2
Config/testthat/edition: 3
Roxygen: list(markdown = TRUE)
Biarch: true
SystemRequirements: GNU make
VignetteBuilder: knitr
Collate: 
    'waiver.R'
    'class-biodiversitydataset.R'
    'class-biodiversitydistribution.R'
    'add_biodiversity.R'
    'class-biodiversityscenario.R'
    'add_constraint.R'
    'add_constraint_MigClim.R'
    'add_control_bias.R'
    'add_latent.R'
    'add_limits_extrapolation.R'
    'class-log.R'
    'add_log.R'
    'add_offset.R'
    'class-predictors.R'
    'add_predictors.R'
    'add_predictors_globiom.R'
    'add_predictors_model.R'
    'class-distributionmodel.R'
    'class-prior.R'
    'class-priorlist.R'
    'add_priors.R'
    'check.R'
    'class-engine.R'
    'class-settings.R'
    'distribution.R'
    'effects.R'
    'engine_bart.R'
    'engine_breg.R'
    'engine_gdb.R'
    'engine_glm.R'
    'engine_glmnet.R'
    'utils-inla.R'
    'engine_inla.R'
    'engine_inlabru.R'
    'engine_scampr.R'
    'engine_stan.R'
    'engine_xgboost.R'
    'ensemble.R'
    'get_data.R'
    'ibis.iSDM-package.R'
    'identifier.R'
    'limiting.R'
    'mask.R'
    'misc.R'
    'partial.R'
    'plot.R'
    'print.R'
    'prior_bart.R'
    'prior_breg.R'
    'prior_gdb.R'
    'prior_glmnet.R'
    'prior_inla.R'
    'prior_stan.R'
    'prior_xgb.R'
    'priors.R'
    'project.R'
    'pseudoabsence.R'
    'render_html.R'
    'scenario.R'
    'similarity.R'
    'simulate_population_steps.R'
    'summary.R'
    'threshold.R'
    'train.R'
    'utils-bart.R'
    'utils-breg.R'
    'utils-form.R'
    'utils-gdb.R'
    'utils-glmnet.R'
    'utils-predictors.R'
    'utils-scenario.R'
    'utils-spatial.R'
    'utils-stan.R'
    'utils-xgboost.R'
    'utils.R'
    'validate.R'
    'write_output.R'
    'zzz.R'
Remotes:
  ElliotDovers/scampr