# --------------------------------------------
# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
# --------------------------------------------
 
cff-version: 1.2.0
message: 'To cite package "spOccupancy" in publications use:'
type: software
license: GPL-3.0-or-later
title: 'spOccupancy: Single-Species, Multi-Species, and Integrated Spatial Occupancy
  Models'
version: 0.8.1
doi: 10.1111/2041-210X.13897
identifiers:
- type: doi
  value: 10.32614/CRAN.package.spOccupancy
- type: url
  value: https://groups.google.com/g/spocc-spabund-users
abstract: Fits single-species, multi-species, and integrated non-spatial and spatial
  occupancy models using Markov Chain Monte Carlo (MCMC). Models are fit using Polya-Gamma
  data augmentation detailed in Polson, Scott, and Windle (2013) <https://doi.org/10.1080/01621459.2013.829001>.
  Spatial models are fit using either Gaussian processes or Nearest Neighbor Gaussian
  Processes (NNGP) for large spatial datasets. Details on NNGP models are given in
  Datta, Banerjee, Finley, and Gelfand (2016) <https://doi.org/10.1080/01621459.2015.1044091>
  and Finley, Datta, and Banerjee (2022) <https://doi.org/10.18637/jss.v103.i05>.
  Provides functionality for data integration of multiple single-species occupancy
  data sets using a joint likelihood framework. Details on data integration are given
  in Miller, Pacifici, Sanderlin, and Reich (2019) <https://doi.org/10.1111/2041-210X.13110>.
  Details on single-species and multi-species models are found in MacKenzie, Nichols,
  Lachman, Droege, Royle, and Langtimm (2002) <https://doi.org/10.1890/0012-9658(2002)083[2248:ESORWD]2.0.CO;2>
  and Dorazio and Royle <https://doi.org/10.1198/016214505000000015>, respectively.
authors:
- family-names: Doser
  given-names: Jeffrey
  email: jwdoser@ncsu.edu
- family-names: Finley
  given-names: Andrew
preferred-citation:
  type: article
  title: 'spOccupancy: An R package for single-species, multi-species, and integrated
    spatial occupancy models'
  authors:
  - family-names: Doser
    given-names: Jeffrey W.
  - family-names: Finley
    given-names: Andrew O.
  - family-names: Kéry
    given-names: Marc
  - family-names: Zipkin
    given-names: Elise F.
  journal: Methods in Ecology and Evolution
  year: '2022'
  volume: '13'
  url: https://doi.org/10.1111/2041-210X.13897
  start: 1670-1678
  doi: 10.1111/2041-210X.13897
repository: https://ecoverser.r-universe.dev
repository-code: https://github.com/biodiverse/spOccupancy
commit: d2942b91e33d9bb073a8aa8ca86db22f4fbf729e
url: https://www.doserlab.com/files/spoccupancy-web
date-released: '2025-07-18'
contact:
- family-names: Doser
  given-names: Jeffrey
  email: jwdoser@ncsu.edu
references:
- type: article
  title: Joint species distribution models with imperfect detection for high-dimensional
    spatial data
  authors:
  - family-names: Doser
    given-names: Jeffrey W.
  - family-names: Finley
    given-names: Andrew O.
  - family-names: Banerjee
    given-names: Sudipto
  journal: Ecology
  year: '2023'
  url: https://doi.org/10.1002/ecy.4137
  start: e4137
  doi: 10.1002/ecy.4137
- type: article
  title: Modeling complex species-environment relationships through spatially-varying
    coefficient occupancy models
  authors:
  - family-names: Doser
    given-names: Jeffrey W.
  - family-names: Finley
    given-names: Andrew O.
  - family-names: Saunders
    given-names: Sarah P.
  - family-names: Kéry
    given-names: Marc
  - family-names: Weed
    given-names: Aaron S.
  - family-names: Zipkin
    given-names: Elise F.
  journal: Journal of Agricultural, Biological, and Environmental Statistics
  year: '2024'
  url: https://doi.org/10.1007/s13253-023-00595-6
  doi: 10.1007/s13253-023-00595-6