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Package: ubms
Version: 1.2.5
Date: 2023-08-21
Title: Bayesian Models for Data from Unmarked Animals using 'Stan'
Authors@R: person("Ken", "Kellner", email="contact@kenkellner.com",
role=c("cre","aut"))
Depends:
R (>= 3.4.0),
unmarked
Imports:
ggplot2 (>= 2.0.0),
gridExtra,
lme4,
loo,
Matrix (>= 1.5-0),
methods,
pbapply,
Rcpp (>= 0.12.0),
rlang,
RSpectra,
rstan (>= 2.26.0),
rstantools (>= 2.0.0),
stats
Suggests: covr, devtools, knitr, pkgdown, raster, rmarkdown, roxygen2, testthat
VignetteBuilder: knitr
Description: Fit Bayesian hierarchical models of animal abundance and occurrence
via the 'rstan' package, the R interface to the 'Stan' C++ library.
Supported models include single-season occupancy, dynamic occupancy, and
N-mixture abundance models. Covariates on model parameters are specified
using a formula-based interface similar to package 'unmarked', while also
allowing for estimation of random slope and intercept terms. References:
Carpenter et al. (2017) <doi:10.18637/jss.v076.i01>;
Fiske and Chandler (2011) <doi:10.18637/jss.v043.i10>.
License: GPL (>=3)
URL: https://kenkellner.com/ubms/
BugReports: https://github.com/kenkellner/ubms/issues
Encoding: UTF-8
RoxygenNote: 7.2.2
Biarch: true
LinkingTo:
BH (>= 1.66.0),
Rcpp (>= 0.12.0),
RcppArmadillo (>= 0.9.300.2.0),
RcppEigen (>= 0.3.3.3.0),
rstan (>= 2.26.0),
StanHeaders (>= 2.26.0),
RcppParallel (>= 5.0.2)
SystemRequirements: GNU make
Collate:
'RcppExports.R'
'submodel.R'
'response.R'
'inputs.R'
'fit.R'
'posterior_predict.R'
'posterior_linpred.R'
'fitted.R'
'gof.R'
'occu.R'
'colext.R'
'missing.R'
'distsamp.R'
'fitlist.R'
'kfold.R'
'occuTTD.R'
'multinomPois.R'
'occuRN.R'
'pcount.R'
'loglik.R'
'mb_chisq.R'
'plot_effects.R'
'plot_posteriors.R'
'predict.R'
'priors.R'
'ranef.R'
'residuals.R'
'spatial.R'
'stanmodels.R'
'test-helpers.R'
'ubms-package.R'
'ubmsFit-methods.R'
'ubmsFitList-methods.R'
'umf.R'
'utils.R'
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