Quick and Dirty Estimates for Wildlife Populations


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Documentation for package ‘wiqid’ version 0.3.3

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A B C D G K L M O P Q R S T W

wiqid-package Fast, simple estimation functions for wildlife population models

-- A --

AICc Akaike's Information Criterion with small-sample correction - AICc
AICtable Make a table for AIC or other criterion
allCombinations Create formulae for all combinations of covariates
as.Bwiqid Conversion to class Bwiqid (deprecated)
as.Bwiqid.default Conversion to class Bwiqid (deprecated)

-- B --

Bbinom Bayesian analysis of binomial data
Bbinomial Bayesian analysis of binomial data
BetaDist The Beta Distribution
biodBerger Biodiversity indices
biodBrillouin Biodiversity indices
biodShannon Biodiversity indices
biodSimpson Biodiversity indices
Bnormal Bayesian modelling of a normal (Gaussian) distribution
Bnormal2 Bayesian modelling of a normal (Gaussian) distribution
BoccSS Bayesian single-season occupancy modelling
BoccSS0 Bayesian single-season occupancy modelling
Bpoisson Bayesian analysis of count data
Bsecr0 Spatially explicit capture-recapture (secr) density estimation using MCMC
BsurvCJS Survival from recapture data with Cormack-Jolly-Seber (CJS) model
Bwiqid-class Conversion to class Bwiqid (deprecated)

-- C --

closedCapM0 Analysis of mark-recapture data for closed populations
closedCapMb Analysis of mark-recapture data for closed populations
closedCapMh2 Analysis of mark-recapture data for closed populations
closedCapMhJK Analysis of mark-recapture data for closed populations
closedCapMt Analysis of mark-recapture data for closed populations
closedCapMtcov Analysis of mark-recapture data for closed populations

-- D --

dbeta2 The Beta Distribution
dbeta3 The Beta Distribution
dgamma2 The Gamma Distribution
dippers Capture-recapture data for European dippers
Distance Measures Plug-in distance-measure functions for 'distShell'.
distBrayCurtis Plug-in distance-measure functions for 'distShell'.
distChaoJaccCorr Plug-in distance-measure functions for 'distShell'.
distChaoJaccNaive Plug-in distance-measure functions for 'distShell'.
distChaoSorCorr Plug-in distance-measure functions for 'distShell'.
distChaoSorNaive Plug-in distance-measure functions for 'distShell'.
distChord Plug-in distance-measure functions for 'distShell'.
distJaccard Plug-in distance-measure functions for 'distShell'.
distMatching Plug-in distance-measure functions for 'distShell'.
distMorisitaHorn Plug-in distance-measure functions for 'distShell'.
distOchiai Plug-in distance-measure functions for 'distShell'.
distPreston Plug-in distance-measure functions for 'distShell'.
distRogersTanimoto Plug-in distance-measure functions for 'distShell'.
distShell Distance Matrix Computation
distSimRatio Plug-in distance-measure functions for 'distShell'.
distSorensen Plug-in distance-measure functions for 'distShell'.
distTestData An artificial data set to test distance/dissimilarity measures
distWhittaker Plug-in distance-measure functions for 'distShell'.
Diversity indices Biodiversity indices
dt2 The Generalized Student's t Distribution
dt3 The Generalized Student's t Distribution

-- G --

GammaDist The Gamma Distribution
getBeta2Par The Beta Distribution
getBeta3Par The Beta Distribution
getGammaPar The Gamma Distribution
getMCerror MCMC error using the batch method (deprecated)
GrandSkinks Multi-season detection data for grand skinks

-- K --

KanhaTigers Capture history matrix for camera-trapped tigers
KillarneyBirds Abundance of woodland birds

-- L --

Links Logit and probit links for generalised linear modelling
links Logit and probit links for generalised linear modelling

-- M --

MeadowVoles Robust design mark-recapture data for meadow voles

-- O --

occ2sps Single-season two-species occupancy estimation
occMS Multi-season occupancy estimation
occMS0 Multi-season occupancy estimation
occMScovSite Multi-season occupancy estimation
occMStime Multi-season occupancy estimation
occSS Single-season occupancy estimation
occSS0 Single-season occupancy estimation
occSScovSite Single-season occupancy estimation
occSSrn Royle-Nichols model for single-season occupancy estimation
occSSrn0 Royle-Nichols model for single-season occupancy estimation
occSSrnSite Royle-Nichols model for single-season occupancy estimation
occSStime Single-season occupancy estimation

-- P --

pbeta2 The Beta Distribution
pbeta3 The Beta Distribution
pgamma2 The Gamma Distribution
plot.Bwiqid Plot method for objects of class 'Bwiqid'
plotACs Plot Activity Centres from 'Bsecr0' output
plotComb Display a posterior probability distribution from the comb method
plotPost Deprecated functions in package wiqid
predict.wiqid Predict method for objects of class 'wiqid'
predictAvg Predict average values from multiple fitted models
print.Bwiqid Print and summary methods for objects of class 'Bwiqid'
Priors Standardisation and priors
pt2 The Generalized Student's t Distribution
pt3 The Generalized Student's t Distribution

-- Q --

qbeta2 The Beta Distribution
qbeta3 The Beta Distribution
qgamma2 The Gamma Distribution
qt2 The Generalized Student's t Distribution
qt3 The Generalized Student's t Distribution

-- R --

railSims Simulated detection/non-detection data for two species of rails
rbeta2 The Beta Distribution
rbeta3 The Beta Distribution
rgamma2 The Gamma Distribution
richACE Species richness estimators
richBoot Species richness estimators
richChao1 Species richness estimators
richChao2 Species richness estimators
richCurve Species richness estimates based on accumulation curves
richDouble Species richness estimates based on accumulation curves
richDuplicate Species richness estimates based on accumulation curves
richICE Species richness estimators
richJack1 Species richness estimators
richJack2 Species richness estimators
richJackA1 Species richness estimators
richJackA2 Species richness estimators
richMM Species richness estimators
richRarefy Sample-based rarefaction curves
richRenLau Species richness estimators
richSingle Species richness estimates based on accumulation curves
richSobs Species richness estimates based on accumulation curves
richUnique Species richness estimates based on accumulation curves
rt2 The Generalized Student's t Distribution
rt3 The Generalized Student's t Distribution

-- S --

salamanders Occupancy data for blue ridge salamanders
secrFit Spatially Explicit Capture-Recapture
seedbank Seed abundances in soil samples
showShinyApp Display a 'shiny' application
simpleRhat The Brooks-Gelman-Rubin (BGR) convergence diagnostic (deprecated)
Species richness estimators Species richness estimators
Standardisation Standardisation and priors
Standardization Standardisation and priors
standardize Scaling and centring of vectors, matrices and arrays
standardize2match Scaling and centring of vectors, matrices and arrays
summary.Bwiqid Print and summary methods for objects of class 'Bwiqid'
survCJS Survival from recapture data with Cormack-Jolly-Seber (CJS) model
survCJSaj Survival from recapture data with Cormack-Jolly-Seber (CJS) model
survRD Survival from mark-recapture data with robust design
survRDah Survival from mark-recapture data with robust design

-- T --

TDist The Generalized Student's t Distribution
Temburong Tree species count data
TemburongBA Tree species count data
toves Simulated detection/non-detection data for a fictitious species

-- W --

WAIC Extract the Watanabe-Akaike Information Criterion (WAIC)
weta Detection data for weta in gorse bushes
wiqid Fast, simple estimation functions for wildlife population models
wiqid-class The 'wiqid' S3 class