Mark-Recapture Distance Sampling

adj.check.order | Check order of adjustment terms |

apex.gamma | Get the apex for a gamma detection function |

assign.default.values | Assign default values to list elements that have not been... |

assign.par | Extraction and assignment of parameters to vector |

average.line | Average detection function line for plotting |

average.line.cond | Average conditional detection function line for plotting |

book.tee.data | Golf tee data used in chapter 6 of Advanced Distance Sampling... |

calc.se.Np | Find se of average p and N |

cdf.ds | Cumulative distribution function (cdf) for fitted distance... |

cds | CDS function definition |

check.bounds | Check parameters bounds during optimsations |

check.mono | Check that a detection function is monotone |

coef.ds | Extract coefficients |

compute.Nht | Horvitz-Thompson estimates 1/p_i or s_i/p_i |

covered.region.dht | Covered region estimate of abundance from... |

create.bins | Create bins from a set of binned distances and a set of... |

create.ddfobj | Create detection function object |

create.model.frame | Create a model frame for ddf fitting |

create.varstructure | Creates structures needed to compute abundance and variance |

ddf | Distance Detection Function Fitting |

ddf.ds | CDS/MCDS Distance Detection Function Fitting |

ddf.gof | Goodness of fit tests for distance sampling models |

ddf.io | Mark-Recapture Distance Sampling (MRDS) IO - PI |

ddf.io.fi | Mark-Recapture Distance Sampling (MRDS) IO - FI |

ddf.rem | Mark-Recapture Distance Sampling (MRDS) Removal - PI |

ddf.rem.fi | Mark-Recapture Distance Sampling (MRDS) Removal - FI |

ddf.trial | Mark-Recapture Distance Sampling (MRDS) Trial Configuration -... |

ddf.trial.fi | Mark-Recapture Analysis of Trial Configuration - FI |

DeltaMethod | Numeric Delta Method approximation for the... |

detfct.fit | Fit detection function using key-adjustment functions |

detfct.fit.opt | Fit detection function using key-adjustment functions |

det.tables | Observation detection tables |

dht | Density and abundance estimates and variances |

dht.deriv | Computes abundance estimates at specified parameter values... |

dht.se | Variance and confidence intervals for density and abundance... |

distpdf | Detection functions |

ds.function | Distance Sampling Functions |

flnl | Log-likelihood computation for distance sampling data |

flt.var | Hessian computation for fitted distance detection function... |

g0 | Compute value of p(0) using a logit formulation |

getpar | Extraction and assignment of parameters to vector |

gof.ds | Compute chi-square goodness-of-fit test for ds models |

gstdint | Integral of pdf of distances |

histline | Plot histogram line |

integratedetfct.logistic | Integrate a logistic detection function |

integratelogistic.analytic | Analytically integrate logistic detection function |

integratepdf | Numerically integrate pdf of observed distances over... |

io.glm | Iterative offset GLM/GAM for fitting detection function |

is.linear.logistic | Collection of functions for logistic detection functions |

is.logistic.constant | Is a logit model constant for all observations? |

keyfct.th1 | Threshold key function |

keyfct.th2 | Threshold key function |

lfbcvi | Black-capped vireo mark-recapture distance sampling analysis |

lfgcwa | Golden-cheeked warbler mark-recapture distance sampling... |

logisticbyx | Logistic as a function of covariates |

logisticbyz | Logistic as a function of distance |

logisticdetfct | Logistic detection function |

logisticdupbyx | Logistic for duplicates as a function of covariates |

logisticdupbyx_fast | Logistic for duplicates as a function of covariates (fast) |

logit | Logit function |

mcds | MCDS function definition |

mrds-opt | Tips on optimisation issues in 'mrds' models |

mrds-package | Mark-Recapture Distance Sampling (mrds) |

NCovered | Compute estimated abundance in covered (sampled) region |

nlminb_wrapper | Wrapper around 'nlminb' |

parse.optimx | Parse optimx results and present a nice object |

p.det | Double-platform detection probability |

pdot.dsr.integrate.logistic | Compute probability that a object was detected by at least... |

plot_cond | Plot conditional detection function from distance sampling... |

plot.det.tables | Observation detection tables |

plot.ds | Plot fit of detection functions and histograms of data from... |

plot.io | Plot fit of detection functions and histograms of data from... |

plot.io.fi | Plot fit of detection functions and histograms of data from... |

plot.layout | Layout for plot methods in mrds |

plot.rem | Plot fit of detection functions and histograms of data from... |

plot.rem.fi | Plot fit of detection functions and histograms of data from... |

plot.trial | Plot fit of detection functions and histograms of data from... |

plot.trial.fi | Plot fit of detection functions and histograms of data from... |

plot_uncond | Plot unconditional detection function from distance sampling... |

predict.ds | Predictions from 'mrds' models |

print.ddf | Simple pretty printer for distance sampling analyses |

print.ddf.gof | Prints results of goodness of fit tests for detection... |

print.det.tables | Print results of observer detection tables |

print.dht | Prints density and abundance estimates |

print.summary.ds | Print summary of distance detection function model object |

print.summary.io | Print summary of distance detection function model object |

print.summary.io.fi | Print summary of distance detection function model object |

print.summary.rem | Print summary of distance detection function model object |

print.summary.rem.fi | Print summary of distance detection function model object |

print.summary.trial | Print summary of distance detection function model object |

print.summary.trial.fi | Print summary of distance detection function model object |

prob.deriv | Derivatives for variance of average p and average p(0)... |

prob.se | Average p and average p(0) variance |

process.data | Process data for fitting distance sampling detection function |

pronghorn | Pronghorn aerial survey data from Wyoming |

ptdata.distance | Single observer point count data example from Distance |

ptdata.dual | Simulated dual observer point count data |

ptdata.removal | Simulated removal observer point count data |

ptdata.single | Simulated single observer point count data |

qqplot.ddf | Quantile-quantile plot and goodness of fit tests for... |

rem.glm | Iterative offset model fitting of mark-recapture with removal... |

rescale_pars | Calculate the parameter rescaling for parameters associated... |

sample_ddf | Generate data from a fitted detection function and refit the... |

setbounds | Set parameter bounds |

setcov | Creates design matrix for covariates in detection function |

setinitial.ds | Set initial values for detection function based on distance... |

sim.mix | Simulation of distance sampling data via mixture models... |

stake77 | Wooden stake data from 1977 survey |

stake78 | Wooden stake data from 1978 survey |

summary.ds | Summary of distance detection function model object |

summary.io | Summary of distance detection function model object |

summary.io.fi | Summary of distance detection function model object |

summary.rem | Summary of distance detection function model object |

summary.rem.fi | Summary of distance detection function model object |

summary.trial | Summary of distance detection function model object |

summary.trial.fi | Summary of distance detection function model object |

survey.region.dht | Extrapolate Horvitz-Thompson abundance estimates to entire... |

test.breaks | Test validity for histogram breaks(cutpoints) |

varn | Compute empirical variance of encounter rate |

Embedding an R snippet on your website

Add the following code to your website.

For more information on customizing the embed code, read Embedding Snippets.