User-friendly and fast set of functions for estimating parameters of hierarchical Bayesian species distribution models (Latimer et al. 2006
hSDM is an R package for estimating parameters of hierarchical
Bayesian species distribution models. Such models allow interpreting the
observations (occurrence and abundance of a species) as a result of
several hierarchical processes including ecological processes (habitat
suitability, spatial dependence and anthropogenic disturbance) and
observation processes (species detectability). Hierarchical species
distribution models are essential for accurately characterizing the
environmental response of species, predicting their probability of
occurrence, and assessing uncertainty in the model results.
# Install release version from CRANinstall.packages("hSDM")# Install development version from GitHubdevtools::install_github("ghislainv/hSDM")
Diez J. M. and Pulliam H. R. 2007. Hierarchical analysis of species distributions and abundance across environmental gradients. Ecology. 88(12): 3144-3152.
Gelfand A. E., Silander J. A., Wu S. S., Latimer A., Lewis P. O., Rebelo A. G. and Holder M. 2006. Explaining species distribution patterns through hierarchical modeling. Bayesian Analysis. 1(1): 41-92.
Latimer, A. M.; Wu, S. S.; Gelfand, A. E. & Silander, J. A. 2006. Building statistical models to analyze species distributions. Ecological Applications. 16(1): 33-50.
MacKenzie, D. I.; Nichols, J. D.; Lachman, G. B.; Droege, S.; Andrew Royle, J. and Langtimm, C. A. 2002. Estimating site occupancy rates when detection probabilities are less than one. Ecology. 83: 2248-2255.
Royle, J. A. 2004. N-mixture models for estimating population size from spatially replicated counts. Biometrics. 60: 108-115.