Fitting and Interpreting Occupancy Models

PLoS ONE

Volumn 8, Issue 1, 2013, Pages

  Welsh, Alan H ^a   Lindenmayer, David B ^b   Donnelly, Christine F ^b  

^a AUSTRALIAN NATIONAL UNIVERSITY   (Australia)

^b AUSTRALIAN NATIONAL UNIVERSITY   (Australia)

Author keywords

[No Author keywords available]

Indexed keywords

ACANTHIZA CHRYSORRHOA; ACANTHIZA PUSILLA; ACCURACY; ANALYTICAL ERROR; ARTICLE; BIRD; COVARIANCE; INFERENTIAL STATISTICS; NONHUMAN; OCCUPANCY MODEL; POPULATION ABUNDANCE; PROBABILITY; SAMPLING; SIMULATION; SPECIES DISTRIBUTION; STATISTICAL MODEL; THEORETICAL MODEL;

ALGORITHMS; COMPUTER SIMULATION; ECOLOGY; MODELS, BIOLOGICAL; MODELS, STATISTICAL; POPULATION DENSITY; POPULATION DYNAMICS; REPRODUCIBILITY OF RESULTS;

EID: 84872240589     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0052015     Document Type: Article

References (20)

1. MacKenzie D, Nichols J, Royle J, Pollock K, Bailey L, et al. (2006) Occupancy estimation and modelling: Inferring patterns and dynamics of species occurrence. Burlington, MA: Academic Press, 324 pp.
2. Lindenmayer D, Cunningham R, MacGregor C, Tribolet C, Donnelly C, (2001) A prospective longitudinal study of landscape matrix effects on woodland remnants: experimental design and baseline data for mammals, reptiles and nocturnal birds. Biological Conservation 101: 157-169.
3. Lindenmayer D, Cunningham R, MacGregor C, Crane M, Michael D, et al. (2008) Temporal changes in vertebrates during landscape transformation: A large-scale natural experiment. Ecological Monographs 78: 567-590.
4. MacKenzie D, (2002) Estimating site occupancy rates when detection probabilities are less than one. The Ecological Society of America 83: 2248-2255.
5. Yee T, (2008) The VGAM package. R News 8: 28-39.
6. Welsh A (1996) Aspects of Statistical Inference. New York: Wiley, 451 pp.
7. McCullagh P, Nelder J (1989) Generalized linear models. London: Chapman and Hall, second edition, 511 pp.
8. Schieck J, (1997) Biased detection of bird vocalizations affects comparisons of bird abundance among forested habitats. Condor 99: 179-190.
9. Pacifici K, Simons T, Pollock K, (2008) Effects of vegetation and background noise on the detection process in auditory avian point-count surveys. Auk 125: 600-607.
10. Royle J, Nichols J, (2003) Estimating abundance from repeated presence absence data or point counts. Ecology 84: 777-790.
11. Carroll R, Ruppert D, Stefanski L (1995) Measurement error in nonlinear models. London: Chapman and Hall, 305 pp.
12. Mullahy J, (1986) Specification and testing of some modified count data models. Journal of Econometrics 33: 341-365.
13. Wenger S, Freeman M, (2008) Estimating species occurrence, abundance and detection probability using zero-inflated distributions. Ecology 89: 2953-2959.
14. Bell H, (1980) Composition and seasonality of mixed-species feeding flocks of insectivorous birds in the australian capital territory. Emu 80: 227-232.
15. Chambers R, Steel D, Wang S, Welsh A (2012) Maximum likelihood estimation for sample surveys. Boca Raton, FL: CRC Press, 375 pp.
16. Royle J, (2006) Site occupancy models with heterogeneous detection probabilities. Biometrics 62: 97-102.
17. Royle J, (2004) Modeling abundance index data from anuran calling surveys. Conservation Biology 18: 1378-1385.
18. Royle J, Link W, (2005) A general class of multinomial mixture models for anuran calling survey data. Ecology 86: 2505-2512.
19. MacKenzie D, Nichols J, Seamans M, Gutierrez R, (2009) Dynamic models for problems of species occurrence with multiple states. Ecology 90: 823-835.
20. Simons T, Alldredge M, Pollock K, Wettroth J, (2007) Experimental analysis of the auditory detection process on avian point counts. Auk 124: 986-999.