PGOcc                   Function for Fitting Single-Species Occupancy
                        Models Using Polya-Gamma Latent Variables
fitted.PGOcc            Extract Model Fitted Values for PGOcc Object
fitted.intPGOcc         Extract Model Fitted Values for intPGOcc Object
fitted.lfJSDM           Extract Model Fitted Values for lfJSDM Object
fitted.lfMsPGOcc        Extract Model Fitted Values for lfMsPGOcc
                        Object
fitted.msPGOcc          Extract Model Fitted Values for msPGOcc Object
fitted.sfJSDM           Extract Model Fitted Values for sfJSDM Object
fitted.sfMsPGOcc        Extract Model Fitted Values for sfMsPGOcc
                        Object
fitted.spIntPGOcc       Extract Model Fitted Values for spIntPGOcc
                        Object
fitted.spMsPGOcc        Extract Model Fitted Values for spMsPGOcc
                        Object
fitted.spPGOcc          Extract Model Fitted Values for spPGOcc Object
fitted.stIntPGOcc       Extract Model Fitted Values for stIntPGOcc
                        Object
fitted.stMsPGOcc        Extract Model Fitted Values for stMsPGOcc
                        Object
fitted.stPGOcc          Extract Model Fitted Values for stPGOcc Object
fitted.svcMsPGOcc       Extract Model Fitted Values for svcMsPGOcc
                        Object
fitted.svcPGBinom       Extract Model Fitted Values for svcPGBinom
                        Object
fitted.svcPGOcc         Extract Model Fitted Values for svcPGOcc Object
fitted.svcTIntPGOcc     Extract Model Fitted Values for svcTIntPGOcc
                        Object
fitted.svcTMsPGOcc      Extract Model Fitted Values for svcTMsPGOcc
                        Object
fitted.svcTPGBinom      Extract Model Fitted Values for svcTPGBinom
                        Object
fitted.svcTPGOcc        Extract Model Fitted Values for svcTPGOcc
                        Object
fitted.tIntPGOcc        Extract Model Fitted Values for tIntPGOcc
                        Object
fitted.tMsPGOcc         Extract Model Fitted Values for tMsPGOcc Object
fitted.tPGOcc           Extract Model Fitted Values for tPGOcc Object
getSVCSamples           Extract spatially-varying coefficient MCMC
                        samples
hbef2015                Detection-nondetection data of 12 foliage
                        gleaning bird species in 2015 in the Hubbard
                        Brook Experimental Forest
hbefElev                Elevation in meters extracted at a 30m
                        resolution across the Hubbard Brook
                        Experimental Forest
hbefTrends              Detection-nondetection data of 12 foliage
                        gleaning bird species from 2010-2018 in the
                        Hubbard Brook Experimental Forest
intMsPGOcc              Function for Fitting Integrated Multi-Species
                        Occupancy Models Using Polya-Gamma Latent
                        Variables
intPGOcc                Function for Fitting Single-Species Integrated
                        Occupancy Models Using Polya-Gamma Latent
                        Variables
lfJSDM                  Function for Fitting a Latent Factor Joint
                        Species Distribution Model
lfMsPGOcc               Function for Fitting Latent Factor
                        Multi-Species Occupancy Models
msPGOcc                 Function for Fitting Multi-Species Occupancy
                        Models Using Polya-Gamma Latent Variables
neon2015                Detection-nondetection data of 12 foliage
                        gleaning bird species in 2015 in Bartlett
                        Experimental Forest in New Hampshire, USA
postHocLM               Function for Fitting Linear Mixed Models with
                        Previous Model Estimates
ppcOcc                  Function for performing posterior predictive
                        checks
predict.PGOcc           Function for prediction at new locations for
                        single-species occupancy models
predict.intMsPGOcc      Function for prediction at new locations for
                        integrated multi-species occupancy models
predict.intPGOcc        Function for prediction at new locations for
                        single-species integrated occupancy models
predict.lfJSDM          Function for prediction at new locations for
                        latent factor joint species distribution models
predict.lfMsPGOcc       Function for prediction at new locations for
                        latent factor multi-species occupancy models
predict.msPGOcc         Function for prediction at new locations for
                        multi-species occupancy models
predict.sfJSDM          Function for prediction at new locations for
                        spatial factor joint species distribution model
predict.sfMsPGOcc       Function for prediction at new locations for
                        spatial factor multi-species occupancy models
predict.spIntPGOcc      Function for prediction at new locations for
                        single-species integrated spatial occupancy
                        models
predict.spMsPGOcc       Function for prediction at new locations for
                        multi-species spatial occupancy models
predict.spPGOcc         Function for prediction at new locations for
                        single-species spatial occupancy models
predict.stIntPGOcc      Function for prediction at new locations for
                        multi-season single-species spatial integrated
                        occupancy models
predict.stMsPGOcc       Function for prediction at new locations for
                        multi-season multi-species spatial occupancy
                        models
predict.stPGOcc         Function for prediction at new locations for
                        multi-season single-species spatial occupancy
                        models
predict.svcMsPGOcc      Function for prediction at new locations for
                        spatially varying coefficient multi-species
                        occupancy models
predict.svcPGBinom      Function for prediction at new locations for
                        single-species spatially-varying coefficient
                        Binomial models
predict.svcPGOcc        Function for prediction at new locations for
                        single-species spatially-varying coefficient
                        occupancy models
predict.svcTIntPGOcc    Function for prediction at new locations for
                        multi-season single-species spatially-varying
                        coefficient integrated occupancy models
predict.svcTMsPGOcc     Function for prediction at new locations for
                        multi-season multi-species spatially-varying
                        coefficient occupancy models
predict.svcTPGBinom     Function for prediction at new locations for
                        multi-season single-species spatially-varying
                        coefficient binomial models
predict.svcTPGOcc       Function for prediction at new locations for
                        multi-season single-species spatially-varying
                        coefficient occupancy models
predict.tIntPGOcc       Function for prediction at new locations for
                        multi-season single-species integrated
                        occupancy models
predict.tMsPGOcc        Function for prediction at new locations for
                        multi-season multi-species occupancy models
predict.tPGOcc          Function for prediction at new locations for
                        multi-season single-species occupancy models
residuals.PGOcc         Occupancy and detection residuals for 'PGOcc'
                        models
residuals.spPGOcc       Occupancy and detection residuals for 'spPGOcc'
                        models
residuals.svcPGOcc      Occupancy and detection residuals for
                        'svcPGOcc' models
sfJSDM                  Function for Fitting a Spatial Factor Joint
                        Species Distribution Model
sfMsPGOcc               Function for Fitting Spatial Factor
                        Multi-Species Occupancy Models
simBinom                Simulate Single-Species Binomial Data
simIntMsOcc             Simulate Multi-Species Detection-Nondetection
                        Data from Multiple Data Sources
simIntOcc               Simulate Single-Species Detection-Nondetection
                        Data from Multiple Data Sources
simMsOcc                Simulate Multi-Species Detection-Nondetection
                        Data
simOcc                  Simulate Single-Species Detection-Nondetection
                        Data
simTBinom               Simulate Multi-Season Single-Species Binomial
                        Data
simTIntOcc              Simulate Single-Species Multi-Season
                        Detection-Nondetection Data from Multiple Data
                        Sources
simTMsOcc               Simulate Multi-Species Multi-Season
                        Detection-Nondetection Data
simTOcc                 Simulate Multi-Season Single-Species
                        Detection-Nondetection Data
spIntPGOcc              Function for Fitting Single-Species Integrated
                        Spatial Occupancy Models Using Polya-Gamma
                        Latent Variables
spMsPGOcc               Function for Fitting Multi-Species Spatial
                        Occupancy Models Using Polya-Gamma Latent
                        Variables
spOccupancy-package     Single-Species, Multi-Species, and Integrated
                        Spatial Occupancy Models
spPGOcc                 Function for Fitting Single-Species Spatial
                        Occupancy Models Using Polya-Gamma Latent
                        Variables
stIntPGOcc              Function for Fitting Multi-Season
                        Single-Species Spatial Integrated Occupancy
                        Models Using Polya-Gamma Latent Variables
stMsPGOcc               Function for Fitting Multi-Species Multi-Season
                        Spatial Occupancy Models
stPGOcc                 Function for Fitting Multi-Season
                        Single-Species Spatial Occupancy Models Using
                        Polya-Gamma Latent Variables
summary.PGOcc           Methods for PGOcc Object
summary.intMsPGOcc      Methods for intMsPGOcc Object
summary.intPGOcc        Methods for intPGOcc Object
summary.lfJSDM          Methods for lfJSDM Object
summary.lfMsPGOcc       Methods for lfMsPGOcc Object
summary.msPGOcc         Methods for msPGOcc Object
summary.postHocLM       Methods for postHocLM Object
summary.ppcOcc          Methods for ppcOcc Object
summary.sfJSDM          Methods for sfJSDM Object
summary.sfMsPGOcc       Methods for sfMsPGOcc Object
summary.spIntPGOcc      Methods for spIntPGOcc Object
summary.spMsPGOcc       Methods for spMsPGOcc Object
summary.spPGOcc         Methods for spPGOcc Object
summary.stIntPGOcc      Methods for stIntPGOcc Object
summary.stMsPGOcc       Methods for stMsPGOcc Object
summary.stPGOcc         Methods for stPGOcc Object
summary.svcMsPGOcc      Methods for svcMsPGOcc Object
summary.svcPGBinom      Methods for svcPGBinom Object
summary.svcPGOcc        Methods for svcPGOcc Object
summary.svcTIntPGOcc    Methods for svcTIntPGOcc Object
summary.svcTMsPGOcc     Methods for svcTMsPGOcc Object
summary.svcTPGBinom     Methods for svcTPGBinom Object
summary.svcTPGOcc       Methods for svcTPGOcc Object
summary.tIntPGOcc       Methods for tIntPGOcc Object
summary.tMsPGOcc        Methods for tMsPGOcc Object
summary.tPGOcc          Methods for tPGOcc Object
svcMsPGOcc              Function for Fitting Multi-Species
                        Spatially-Varying Coefficient Occupancy Models
svcPGBinom              Function for Fitting Single-Species
                        Spatially-Varying Coefficient Binomial Models
                        Using Polya-Gamma Latent Variables
svcPGOcc                Function for Fitting Single-Species
                        Spatially-Varying Coefficient Occupancy Models
                        Using Polya-Gamma Latent Variables
svcTIntPGOcc            Function for Fitting Multi-Season
                        Single-Species Spatially-varying Coefficient
                        Integrated Occupancy Models Using Polya-Gamma
                        Latent Variables
svcTMsPGOcc             Function for Fitting Multi-Species Multi-Season
                        Spatially-Varying Coefficient Occupancy Models
svcTPGBinom             Function for Fitting Multi-Season
                        Single-Species Spatially-Varying Coefficient
                        Binomial Models Using Polya-Gamma Latent
                        Variables
svcTPGOcc               Function for Fitting Multi-Season
                        Single-Species Spatially-Varying Coefficient
                        Occupancy Models Using Polya-Gamma Latent
                        Variables
tIntPGOcc               Function for Fitting Multi-Season
                        Single-Species Integrated Occupancy Models
                        Using Polya-Gamma Latent Variables
tMsPGOcc                Function for Fitting Multi-Species Multi-Season
                        Occupancy Models
tPGOcc                  Function for Fitting Multi-Season
                        Single-Species Occupancy Models Using
                        Polya-Gamma Latent Variables
updateMCMC              Update a spOccupancy or spAbundance model run
                        with more MCMC iterations
waicOcc                 Compute Widely Applicable Information Criterion
                        for spOccupancy Model Objects
