Package: nimble
Title: MCMC, Particle Filtering, and Programmable Hierarchical Modeling
Description: A system for writing hierarchical statistical models largely
    compatible with 'BUGS' and 'JAGS', writing nimbleFunctions to operate models and
    do basic R-style math, and compiling both models and nimbleFunctions via custom-
    generated C++. 'NIMBLE' includes default methods for MCMC, particle filtering,
    Monte Carlo Expectation Maximization, and some other tools. The nimbleFunction
    system makes it easy to do things like implement new MCMC samplers from R,
    customize the assignment of samplers to different parts of a model from R, and
    compile the new samplers automatically via C++ alongside the samplers 'NIMBLE'
    provides. 'NIMBLE' extends the 'BUGS'/'JAGS' language by making it extensible:
    New distributions and functions can be added, including as calls to external
    compiled code. Although most people think of MCMC as the main goal of the
    'BUGS'/'JAGS' language for writing models, one can use 'NIMBLE' for writing
    arbitrary other kinds of model-generic algorithms as well. A full User Manual is
    available at <https://r-nimble.org>.
Version: 0.9.0
Date: 2019-12-14
Maintainer: Christopher Paciorek <paciorek@stat.berkeley.edu>
Authors@R: c(
    person("Perry", "de Valpine", role = "aut"),
    person("Christopher", "Paciorek", , "paciorek@stat.berkeley.edu", role = c("aut", "cre")),
    person("Daniel", "Turek", role = "aut"),
    person("Nick", "Michaud", role = "aut"),
    person("Cliff", "Anderson-Bergman", role = "aut"),
    person("Fritz", "Obermeyer", role = "aut"),
    person("Claudia", "Wehrhahn Cortes", role = "aut", comment = "Bayesian nonparametrics system"),
    person("Abel", "Rodriguez", role = "aut", comment = "Bayesian nonparametrics system"),
    person("Sally", "Paganin", role = "aut", comment = "reversible jump MCMC"),
    person("Jagadish", "Babu", role = "ctb", comment = "code for the compilation system for an early version of NIMBLE"),
    person("Dao", "Nguyen", role = "ctb", comment = "contributions to the IF2 code"),
    person("Lauren", "Ponisio", role = "ctb", comment = "contributions to the cross-validation code"),
    person("Peter", "Sujan", role = "ctb", comment = "multivariate t distribution code")
    )
Depends: R (>= 3.1.2)
Imports: methods,igraph,coda,R6
Suggests: testthat
URL: https://r-nimble.org
SystemRequirements: GNU make
License: BSD_3_clause + file LICENSE | GPL (>= 2)
Copyright: See COPYRIGHTS file.
Note: For convenience, the package includes the necessary header files
        for the Eigen distribution. (This is all that is needed to use
        that functionality.) You can use an alternative installation of
        Eigen on your system or the one we provide. The license for the
        Eigen code is very permissive and allows us to distribute it
        with this package. See <http://eigen.tuxfamily.org/index.php?
        title=Main_Page> and also the License section on that page.
LazyData: false
Collate: config.R all_utils.R options.R distributions_inputList.R
        distributions_processInputList.R
        distributions_implementations.R BUGS_BUGSdecl.R BUGS_contexts.R
        BUGS_nimbleGraph.R BUGS_modelDef.R BUGS_model.R
        BUGS_graphNodeMaps.R BUGS_readBUGS.R BUGS_macros.R
        BUGS_testBUGS.R BUGS_getDependencies.R BUGS_utils.R
        BUGS_mathCompatibility.R externalCalls.R genCpp_exprClass.R
        genCpp_operatorLists.R genCpp_RparseTree2exprClasses.R
        genCpp_initSizes.R genCpp_buildIntermediates.R
        genCpp_processSpecificCalls.R genCpp_sizeProcessing.R
        genCpp_toEigenize.R genCpp_insertAssertions.R genCpp_maps.R
        genCpp_liftMaps.R genCpp_eigenization.R genCpp_addDebugMarks.R
        genCpp_generateCpp.R RCfunction_core.R RCfunction_compile.R
        nimbleFunction_util.R nimbleFunction_core.R
        nimbleFunction_nodeFunction.R nimbleFunction_nodeFunctionNew.R
        nimbleFunction_Rexecution.R nimbleFunction_compile.R
        nimbleFunction_keywordProcessing.R nimbleList_core.R
        types_util.R types_symbolTable.R types_modelValues.R
        types_modelValuesAccessor.R types_modelVariableAccessor.R
        types_nimbleFunctionList.R types_nodeFxnVector.R
        types_numericLists.R cppDefs_utils.R cppDefs_variables.R
        cppDefs_core.R cppDefs_namedObjects.R cppDefs_ADtools.R
        cppDefs_BUGSmodel.R cppDefs_RCfunction.R
        cppDefs_nimbleFunction.R cppDefs_nimbleList.R
        cppDefs_modelValues.R cppDefs_cppProject.R
        cppDefs_outputCppFromRparseTree.R cppInterfaces_utils.R
        cppInterfaces_models.R cppInterfaces_modelValues.R
        cppInterfaces_nimbleFunctions.R cppInterfaces_otherTypes.R
        nimbleProject.R initializeModel.R CAR.R MCMC_utils.R
        MCMC_configuration.R MCMC_build.R MCMC_run.R MCMC_samplers.R
        MCMC_conjugacy.R MCMC_autoBlock.R MCMC_RJ.R MCEM_build.R
        crossValidation.R filtering_resamplers.R filtering_auxiliary.R
        filtering_liuwest.R filtering_IF2.R filtering_enkf.R
        filtering_bootstrap.R filtering_utils.R BNP_distributions.R
        BNP_samplers.R NF_utils.R miscFunctions.R makevars.R
        setNimbleInternalFunctions.R registration.R nimble-package.r
        zzz.R
RoxygenNote: 5.0.1
NeedsCompilation: yes
Packaged: 2019-12-18 20:19:14 UTC; paciorek
Author: Perry de Valpine [aut],
  Christopher Paciorek [aut, cre],
  Daniel Turek [aut],
  Nick Michaud [aut],
  Cliff Anderson-Bergman [aut],
  Fritz Obermeyer [aut],
  Claudia Wehrhahn Cortes [aut] (Bayesian nonparametrics system),
  Abel Rodriguez [aut] (Bayesian nonparametrics system),
  Sally Paganin [aut] (reversible jump MCMC),
  Jagadish Babu [ctb] (code for the compilation system for an early
    version of NIMBLE),
  Dao Nguyen [ctb] (contributions to the IF2 code),
  Lauren Ponisio [ctb] (contributions to the cross-validation code),
  Peter Sujan [ctb] (multivariate t distribution code)
Repository: CRAN
Date/Publication: 2019-12-18 21:10:02 UTC
Built: R 4.0.0; i386-w64-mingw32; 2020-04-10 07:38:53 UTC; windows
Archs: i386, x64
