Guidelines for a priori grouping of species in hierarchical community models
Article first published online: 22 FEB 2014
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Ecology and Evolution
Volume 4, Issue 7, pages 877–888, April 2014
How to Cite
Ecology and Evolution 2014; 4(7):877–888
- Issue published online: 7 APR 2014
- Article first published online: 22 FEB 2014
- Manuscript Accepted: 7 JAN 2014
- Manuscript Received: 19 DEC 2013
- North Carolina Cooperative Fish and Wildlife Research Unit and Department of Applied Ecology at North Carolina State University
- 2007. Multiple-species analysis of point count data: a more parsimonious modeling framework. J. Appl. Ecol. 44:281–290. , , , and .
- 2012. Hierarchical multi-species modeling of carnivore responses to hunting, habitat and prey in a West African protected area. PLoS ONE 7:e38007. , , , and .
- 2010. Conservation by proxy: indicator, umbrella, keystone, flagship, and other surrogate species. Island Press, Washington, D.C.
- 2009. Using occupancy models of forest breeding birds to prioritize conservation planning. Biol. Conserv. 142:982–991. , , , , , , et al.
- 2005. Estimating size and composition of biological communities by modeling the occurrence of species. J. Am. Stat. Assoc. 100:389–398. , and .
- 2006. Estimating species richness and accumulation by modeling species occurrence and detectability. Ecology 87:842–854. , , , and .
- 2011. Model based groupings of species across environmental gradients. Ecol. Model. 222:955–963. , , and .
- 2013. Finite mixture of regression modeling for high-dimensional count and biomass data in ecology. J. Agric. Biol. Environ. Stat. 18:357–375. , , , and .
- 2006. An introduction to ROC analysis. Pattern Recogn. Lett. 27:861–874.
- 2007. Data analysis using regression and multilevel/hierarchical models. Cambridge Univ. Press, New York, NY. , and .
- 1992. Inference from iterative simulation using multiple sequences. Stat. Sci. 7:457–511. , and .
- 2013. Effects of management intervention on post-disturbance community composition: an experimental analysis using Bayesian hierarchical models. PLoS ONE 8:e59900. , , , , and .
- 1999. Deriving functional types for rain-forest trees. J. Veg. Sci. 10:641–650. , , and .
- 2013. A strategy for monitoring and managing declines in an amphibian community. Conserv. Biol. 27:1245–1253. , , , and .
- 1992. Land manager's guide to the birds of the South. Pp. 437 General Technical Report SE-22. U.S. Department of Agriculture, Forest Service, Southeastern Forest Experiment Station, Asheville, NC.
- 2001. The unified neutral theory of biodiversity and biogeography. Princeton Univ. Press, Princeton, NJ.
- 2013. Responses of riparian reptile communities to damming and urbanization. Biol. Conserv. 157:277–284. , , , , , and .
- 2012. Patch dynamics and permeability of fragmented habitats in SouthwesternPuerto Rico. [M.S. thesis], North Carolina State University, Raleigh, NC.
- 2011. Generalized linear mixed models for phylogenetic analyses of community structure. Ecol. Monogr. 81:511–525. , and .
- 2012. Seeing the forest and the trees: multilevel models reveal both species and community patterns. Ecosphere 3:art79. , , , and .
- 1980. The comparison of usage and availability measurements for evaluating resource preference. Ecology 61:65–71.
- 2012. Avian species richness in relation to intensive forest management practices in early seral tree plantations. PLoS ONE 7:e43290. , , , , , and .
- 2008. Hierarchical Bayes estimation of species richness and occupancy in spatially replicated surveys. J. Appl. Ecol. 45:589–598. , and .
- 2012. Natural mixing of species: novel plant-animal communities on Caribbean islands. Anim. Conserv. 15:233–241. , , and .
- 2006. Occupancy estimation and modeling: inferring patterns and dynamics of species occurrence. Elsevier, Oxford, U.K. , , , , , and .
- 2013. Community-level vs species-specific approaches to model selection. Ecography 36:1–8. , , and .
- 2013. Explaining local-scale species distributions: relative contributions of spatial autocorrelation and landscape heterogeneity for an avian assemblage. PLoS ONE 8:e55097. , , , , , and .
- 2012. Efficient species-level monitoring at landscape scale. Conserv. Biol. 26:432–441. , , , and .
- 2011. Making more out of sparse data: hierarchical modeling of species communities. Ecology 92:289–295. , and .
- 2012. A two-phase sampling design for increasing detections of rare species in occupancy surveys. Methods Ecol. Evol. 3:721–730. , , and .
- 2012. A comparison of five classifications of species into functional groups in tropical forests of French Guiana. Ecol. Complex. 11:75–83. , , , and .
- 2005. The birds of North America Online. Available at www.bna.birds.cornell.edu/BNA/. Accessed 10 April 2013. Cornell Laboratory of Ornithology, Ithaca, NY. , ed.
- 1982. Foraging behavior of forest birds: the relationships among search tactics, diet, and habitat structure. Ecology 63:1918–1931. , and .
- 2008. Hierarchical modeling and inference in ecology. Academic Press, Boston. , and .
- 2011. Detection biases yield misleading patterns of species persistence and colonization in fragmented landscapes. Ecosphere 2:art61. doi: 10.1890/ES10-00207.1 , and .
- 2010. Occupancy dynamics in a tropical bird community: unexpectedly high forest use by birds classified as non-forest species. J. Appl. Ecol. 47:621–630. , , and .
- 2009. Modeling the effects of environmental disturbance on wildlife communities: avian responses to prescribed fire. Ecol. Appl. 19:1253–1263. , , , , , and .
- 2002. Hierarchical modeling of population stability and species group attributes from survey data. Ecology 86:1743–1751. , and .
- 2013. Using multi-species occupancy models in structured decision making on managed lands. J. Wildl. Manage. 77:117–127. , , , , and .
- 2005. ROCR: visualizing classifier performance in R. Bioinformatics 21:3940. , , , and .
- 2003. WinBUGS version 1.4 user manual. MRC Biostatistics Unit, Cambridge, U.K. , , , and .
- 2002. Effects of sample size on accuracy of species distribution models. Ecol. Model. 148:1–13. , and .
- 2005. R2WinBUGS: a package for running WinBUGS from R. J. Stat. Softw. 12:1–16. , , and .
- 2004. Sampling rare or elusive species: concepts, designs, and techniques for estimating population parameters. Island Press, Washington, D.C. , ed.
- 2013. Cryptic loss of montane avian richness and high community turnover over 100 years. Ecology 94:598–609. , and .
- 2013. Conservation of avian diversity in the Sierra Nevada: moving beyond a single-species management focus. PLoS ONE 8:e63088. doi: 10.1371/journal.pone.0063088 , , , and .
- 2012. Birds see the trees inside the forest: the potential impacts of changes in forest composition on songbirds during spring migration. For. Ecol. Manage. 280:176–186. , , , and .
- 2005. Survey of clustering algorithms. IEEE Trans. Neural Networks 16:645–678. , and .
- 2009. Impacts of forest fragmentation on species richness: a hierarchical approach to community modeling. J. Appl. Ecol. 46:815–822. , , and .
- 2010. Multi-species occurrence models to evaluate the effects of conservation and management actions. Biol. Conserv. 143:479–484. , , , and .
- 2012. Evaluating the predictive abilities of community occupancy models using AUC while accounting for imperfect detection. Ecol. Appl. 22:1962–1972. , , and .