A hierarchical modeling framework for multiple observer transect surveys

PLoS ONE

Volumn 7, Issue 8, 2012, Pages

  Conn, Paul B ^a   Laake, Jeffrey L ^a   Johnson, Devin S ^a  

^a NOAA National Marine Mammal Laboratory   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; CONCEPTUAL FRAMEWORK; CORRELATION ANALYSIS; DATA PROCESSING; GENETIC LINKAGE; HABITAT STRUCTURE; MONTE CARLO METHOD; MULITPLE OBSERVER TRANSECT SURVEY; NONHUMAN; NORMAL DISTRIBUTION; OBSERVER VARIATION; POPULATION ABUNDANCE; POPULATION RESEARCH; PROBABILITY; SAMPLING; SOCIAL DISTANCE; SOCIAL DOMINANCE; STATISTICAL PARAMETERS;

ALGORITHMS; ANIMALS; BAYES THEOREM; BIOMETRY; DATA COLLECTION; DATA INTERPRETATION, STATISTICAL; ECOSYSTEM; MARKOV CHAINS; MODELS, STATISTICAL; MODELS, THEORETICAL; MONTE CARLO METHOD; POISSON DISTRIBUTION; POPULATION DENSITY; POPULATION DYNAMICS; PROBABILITY;

ANIMALIA;

EID: 84864723761     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0042294     Document Type: Article

References (48)

1. Cochran WG, (1977) Sampling Techniques, 3rd Edition. New York: Wiley.
2. Burnham KP, Anderson DR, Laake JL, (1980) Estimation of density for line transect sampling of biological populations. Wildlife Monographs 72: 7-202.
3. Buckland ST, Anderson DR, Burnham KP, Laake JL, Borchers DL, et al. (2001) Introduction to Distance Sampling: Estimating the abundance of biological populations. Oxford, U.K.: Oxford University Press.
4. Buckland ST, (2006) Point-transect surveys for songbirds: robust methodologies. Auk 123: 345-357.
5. Nichols JD, Thomas L, Conn PB, (2009) Inferences about landbird abundance from count data: recent advances and future directions. In: Thomson D, Cooch E, Conroy M, editors, Modeling Demographic Processes in Marked Populations, New York: Springer, volume 3 of Environmental and Ecological Statistics Series. pp. 201-236.
6. Borchers DL, Zucchini W, Fewster RM, (1998) Mark-recapture models for line transect surveys. Biometrics 54: 1207-1220.
7. Laake JL, Borchers DL, (2004) Methods for incomplete detection at distance zero. In: Buckland S, Anderson D, Burnham K, Laake J, Borchers D, et al., editors, Advanced Distance Sampling, Oxford, U.K.: Oxford University Press. pp. 108-189.
8. Borchers DL, Laake JL, Southwell C, Paxton CGM, (2006) Accomodating unmodeled heterogeneity in double-observer distance sampling surveys. Biometrics 62: 372-378.
9. Buckland ST, Laake JL, Borchers DL, (2010) Double-observer line transect methods: Levels of independence. Biometrics 66: 169-177.
10. Drummer TD, Mcdonald LL, (1987) Size bias in line transect sampling. Biometrics 43: 13-21.
11. Ramsey FL, Wildman V, Engbring J, (1987) Adjustments to effective area in variable-area wildlife surveys. Biometrics 43: 1-11.
12. Marques FFC, Buckland ST, (2003) Incorporating covariates into standard line transect analyses. Biometrics 59: 924-935.
13. Huggins RM, (1989) On the statistical analysis of capture-recapture experiments. Biometrika 76: 133-140.
14. Alho JM, (1990) Logistic regression in capture-recapture models. Biometrics 46: 623-635.
15. Royle JA, Dorazio RM, (2008) Hierarchical Modeling and Inference in Ecology. London, U.K.: Academic Press.
16. Link WA, Barker RJ, (2010) Bayesian Inference with Ecological Applications. London, U.K.: Academic Press.
17. Royle JA, Dorazio RM, (2010) Parameter-expanded data augmentation for Bayesian analysis of capture-recapture models. Journal of Ornithology 152: 521-537.
18. Moore JE, Barlow J, (2011) Bayesian state-space model of fin whale abundance trends from a 1991-2008 time series of line-transect surveys in the california current. Journal of Applied Ecology 48: 1195-1205.
19. Chelgren ND, Samora B, Adams MJ, McCreary B, (2011) Using spatiotemporal models and distance sampling to map the space use and abundance of newly metamorphosed western toads (Anaxyrus boreas). Herpetological Conservation and Biology 6: 175-190.
20. Schmidt JH, Rattenbury KL, Lawler JP, Maccluskie MC, (2011) Using distance smapling and hierarchical models to improve estimates of dall's sheep abundance. Journal of Wildlife Management 76: 317-327.
21. Royle JA, Dawson DK, Bates S, (2004) Modeling abundance effects in distance sampling. Ecology 85: 1591-1597.
22. Royle JA, Kéry M, Gautier R, Schmid H, (2007) Hierarchical spatial models of abundance and occurence from imperfect survey data. Ecological Monographs 77: 465-481.
23. Durban JW, Elston D, (2005) Mark-recapture with occasional and individual effects: abundance estimation through Bayesian model selection in a fixed dimensional parameter space. Journal of Agricultural, Biological, and Environmental Statistics 10: 291-305.
24. Tanner MA, Wong WH, (1987) The calculation of posterior distributions by data augmentation (with discussion). Journal of the American Statistical Association 82: 528-550.
25. Royle JA, Dorazio RM, Link WA, (2007) Analysis of multinomial models with unknown index using data augmentation. Journal of Computational and Graphical Statistics 16: 1-19.
26. Carlin BP, Chib S, (1995) Bayesian model choice via Markov chain Monte Carlo methods. Journal of the Royal Statistical Society B 57: 473-485.
27. Green PJ, (1995) Reversible jump Markov chain Monte Carlo computation and Bayesian model determination. Biometrika 82: 711-732.
28. McCullagh P, Nelder JA, (1989) Generalized Linear Models. New York: Chapman and Hall.
29. Albert JH, Chib S, (1993) Bayesian analysis of binary and polychotomous response data. Journal of the American Statistical Association 88: 669-679.
30. McClintock BT, White GC, Antolin MF, Tripp DW, (2009) Estimating abundance using markresight when sampling is with replacement or the number of marked individuals is unknown. Biometrics 65: 237-246.
31. Royle JA, (2008) Hierarchical modeling of cluster size in wildlife surveys. Journal of Agricultural, Biological, and Environmental Statistics 13: 23-36.
32. Gelman A, Carlin JB, Stern HS, Rubin DB, (2004) Bayesian Data Analysis, 2nd Edition. Boca Ration: Chapman and Hall.
33. Collett D, (2003) Modelling Binary Data, 2nd Edition. Boca Raton, Florida: Chapman & Hall/CRC.
34. R Development Core Team (2007) R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna, Austria. Available: http://www.R-project.org. ISBN 3-900051-07-0.
35. Borchers DL, Buckland ST, Zucchini W, (2002) Estimating Animal Abundance: Closed Populations. London, U.K.: Springer-Verlag.
36. Ver Hoef JM, Cameron MF, Boveng PL, London JM, Moreland EE (In press) A hierarchical model for abundance of three ice-associated seal species in the eastern Bering sea. Statistical Methodology.
37. Forney KA, (2000) Environmental models of cetacean abundance: reducing uncertainty in population trends. Conservation Biology 14: 1271-1286.
38. Hedley SL, Buckland ST, (2004) Spatial models for line transect sampling. Journal of Agricultural, Biological, and Environmental Statistics 9: 181-199.
39. Redfern JV, Ferguson MC, Becker EA, Good C, Barlow J, et al. (2006) Techniques for cetaceanhabitat modeling. Marine Ecology Progress Series 310: 271-295.
40. Becker EA, Forney KA, Ferguson MC, Foley DG, Smith RC, et al. (2010) Comparing California Current cetacean-habitat models developed using in situ and remotely sensed sea surface temperature data. Marine Ecology Progress Series 413: 163-183.
41. Spiegelhalter DJ, Best NG, Carlin BP, van der Linde A, (2002) Bayesian measures of model complexity and fit. Journal of the Royal Statistical Society Series B 64: 583-639.
42. Celeux G, Forbes F, Robert CP, Titterington DM, (2006) Deviance information criterion for missing data models. Bayesian Analysis 1: 651-674.
43. Gelfand AE, Ghosh SK, (1998) Model choice: A minimum posterior predictive loss approach. Biometrika 85: 1-11.
44. McLaren IA, (1961) Methods of determining the numbers and availability of ring seals in the eastern canadian arctic. Arctic 14: 162-175.
45. Marsh H, Sinclair DF, (1989) Correcting for visibility bias in strip transect aerial surveys of aquatic fauna. Journal of Wildlife Management 53: 1017-1024.
46. Bengtson JL, Hiruki-Raring LM, Simpkins MA, Boveng PL, (2005) Ringed and bearded seal densities in the eastern Chuckchi Sea, 1999-2000. Polar Biology 28: 833-845.
47. Diefenbach DR, Marshall M, Mattice J, Brauning D, (2007) Incorporating availability for detection in estimates of bird abundance. The Auk 124: 96-106.
48. Ver Hoef JM, Jansen JK, (2007) Space-time zero-inflated count models of harbor seals. Environmetrics 18: 697-712.