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Distance (version 1.0.9)

Distance Sampling Detection Function and Abundance Estimation

Description

A simple way of fitting detection functions to distance sampling data for both line and point transects. Adjustment term selection, left and right truncation as well as monotonicity constraints and binning are supported. Abundance and density estimates can also be calculated (via a Horvitz-Thompson-like estimator) if survey area information is provided. See Miller et al. (2019) for more information on methods and for example analyses.

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Install

install.packages('Distance')

Monthly Downloads

1,513

Version

1.0.9

License

GPL (>= 2)

Issues

21

Pull Requests

0

Stars

11

Forks

9

Maintainer

Laura Marshall

Last Published

December 21st, 2023

Functions in Distance (1.0.9)

Systematic_variance_1

Simulation of encounter rate variance
bootdht_Nhat_summarize

Simple summary of abundance results for bootstrap model
CueCountingExample

Cue counts of whale blows
Distance-package

Distance sampling
dht2

Abundance estimation for distance sampling models
capercaillie

Capercaillie in Monaughty Forest
ds

Fit detection functions and calculate abundance from line or point transect data
print.dsmodel

Simple pretty printer for distance sampling analyses
print.summary.dsmodel

Print summary of distance detection function model object
create.bins

Create bins from a set of binned distances and a set of cutpoints.
ClusterExercise

Simulated minke whale data with cluster size
ds.gof

Goodness of fit tests for distance sampling models
summary.dsmodel

Summary of distance sampling analysis
create_bins

Create bins from a set of binned distances and a set of cutpoints.
predict.dsmodel

Predictions from a fitted detection function
plot.dsmodel

Plot a fitted detection function
summary.dht_bootstrap

Summarize bootstrap abundance uncertainty estimate output
dummy_ddf

Detection function objects when detection is certain
gof_ds

Goodness of fit testing and quantile-quantile plots
flatfile

The flatfile data format
p_dist_table

Distribution of probabilities of detection
golftees

Golf tee data
unflatten

Unflatten flatfile data.frames
bootdht

Bootstrap uncertainty estimation for distance sampling models
bootdht_Dhat_summarize

Simple summary of density results for bootstrap model
minke

Simulated minke whale data
unimak

Simulated line transect survey data with covariates
predict.fake_ddf

Prediction for fake detection functions
ducknest

Ducknest line transect survey data
sikadeer

Sika deer pellet data from southern Scotland
print.dht_result

Print abundance estimates
summarize_ds_models

Make a table of summary statistics for detection function models
logLik.dsmodel

log-likelihood value for a fitted detection function
wren

Steve Buckland's winter wren surveys
make_activity_fn

Multiplier bootstrap helper functions
units_table

Generate table of unit conversions
QAIC

Tools for model selection when distance sampling data are overdispersed
PTExercise

Simulated point transect survey data
AIC.dsmodel

Akaike's An Information Criterion for detection functions
convert_units

Convert units for abundance estimation
add_df_covar_line

Add covariate levels detection function plots
checkdata

Check that the data supplied to ds is correct
amakihi

Hawaiian amakihi point transect data
ETP_Dolphin

Eastern Tropical Pacific spotted dolphin survey
DuikerCameraTraps

Duiker camera trap survey
LTExercise

Simulated line transect survey data
Stratify_example

Simulated minke whale data
Savannah_sparrow_1980

Savanna sparrow point transects