Functions and Data for the Book 'Applied Hierarchical Modeling in Ecology'

Documentation for package ‘AHMbook’ version 0.1.4

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AHMbook-package	Functions and data for the Book 'Applied Hierarchical Modeling in Ecology'
AHMbook	Functions and data for the Book 'Applied Hierarchical Modeling in Ecology'
bigCrossCorr	Cross correlations for MCMC output
body	Imaginary data for dragonflies
color	Imaginary data for dragonflies
crPiFun	Compute multinomial cell probabilities
crPiFun.Mb	Compute multinomial cell probabilities
damage	Imaginary data for dragonflies
data.fn	Simulate data for binomial mixture model
dragonflies	Imaginary data for dragonflies
e2dist	Calculates the pair-wise distances between two sets of points
Finnmark	Data from surveys of birds in Finnmark in NE Norway
fitstats	Functions to return fit statistics
fitstats2	Functions to return fit statistics
image.scale	Helper function to draw scale for image
image_scale	Helper function to draw scale for image
instRemPiFun	Compute multinomial cell probabilities
issj.sim	Simulate open distance sampling data for the Island Scrub Jays
map.Nmix.resi	Mapping of residuals
MHB2014	Data from the Swiss Breeding Bird Survey 2014
MhPiFun	Compute multinomial cell probabilities
mites	Imaginary data for dragonflies
piFuns	Compute multinomial cell probabilities
playRN	Function to play Royle-Nichols model
plot.Nmix.resi	Produce some residual plots
plot_Nmix_resi	Produce some residual plots
pop	Imaginary data for dragonflies
ppc.plot	Plot results from posterior predictive check
sex	Imaginary data for dragonflies
sim.fn	Simulate a Poisson point process
sim.ldata	Simulation of distance sampling data.
sim.pdata	Simulate non-hierarchical point transect (= point count) data
sim.spatialDS	Simulates data for a basic spatial distance sampling model
sim.spatialHDS	Simulates data for a hierarchical spatial distance sampling model
sim3Occ	Simulate data for static 3-level occupancy models
simComm	Simulate community occupancy or community abundance data
simDCM	Simulate detection/nondetection data under a general dynamic community (site-occupancy) model
simDynocc	Simulate data under a non-spatial dynamic occupancy model
simHDS	Simulate data under hierarchical distance sampling protocol (line or point)
simHDSg	Simulate data under HDS protocol with groups
simHDSopen	Simulate open hierarchical distance sampling data
simHDStr	Simulate HDS time-removal or double-observer data
simNmix	Simulate data for binomial and multinomial mixture models
simOcc	Simulate data for static occupancy models under wide range of conditions
simOccttd	Simulate time-to-detection occupancy data
simpleNmix	Simulate N-mixture data under a time-for-space substitution design
spatial.exp	Generate random field with negative exponential correlation
spline.prep	Prepare input for BUGS model when fitting a spline for a covariate
SwissSquirrels	Data for red squirrels in Switzerland
SwissTits	Data from the Swiss Breeding Bird Survey for 6 species of tits
ttdPeregrine	Time-to-detection data for peregrines from the French Jura mountains
wagtail	Data for Dutch wagtails
wigglyOcc	Simulate static occupancy data
wing	Imaginary data for dragonflies