Package: secrdesign 2.9.2

secrdesign: Sampling Design for Spatially Explicit Capture-Recapture

Tools for designing spatially explicit capture-recapture studies of animal populations. This is primarily a simulation manager for package 'secr'. Extensions in version 2.5.0 include costing and evaluation of detector spacing.

Authors:Murray Efford [aut, cre], Ian Durbach [ctb]

secrdesign_2.9.2.tar.gz
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secrdesign.pdf |secrdesign.html✨
secrdesign/json (API)
NEWS

# Install 'secrdesign' in R:

install.packages('secrdesign', repos = c('https://murrayefford.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/murrayefford/secrdesign/issues

Uses libs:

c++– GNU Standard C++ Library v3

On CRAN:

30 exports 1.75 score 38 dependencies 1 mentions 56 scripts 1.0k downloads

Last updated 4 months agofrom:36f58a8f97. Checks:OK: 7 NOTE: 2. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Aug 22 2024
R-4.5-win-x86_64	NOTE	Aug 22 2024
R-4.5-linux-x86_64	NOTE	Aug 22 2024
R-4.4-win-x86_64	OK	Aug 22 2024
R-4.4-mac-x86_64	OK	Aug 22 2024
R-4.4-mac-aarch64	OK	Aug 22 2024
R-4.3-win-x86_64	OK	Aug 22 2024
R-4.3-mac-x86_64	OK	Aug 22 2024
R-4.3-mac-aarch64	OK	Aug 22 2024

Exports:compactSample costing count En2 Enrm estimateArray estimateSummary expand.arg find.param find.stats fit.models GAoptim GApenfn getdetectpar header Lambda make.array make.scenarios minnrRSE minsimRSE optimalSpacing outputtype<-Qpm run.scenarios saturation scenariosFromStatistics scenarioSummary select.stats transformOutput validate

Dependencies:abind BH bigmemory bigmemory.sri class classInt cli DBI e1071 glue KernSmooth kofnGA lattice lifecycle magrittr MASS Matrix mgcv nlme proxy raster Rcpp RcppArmadillo RcppEigen RcppNumerical RcppParallel rlang s2 secr sf sp stringi stringr terra units uuid vctrs wk

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Spatially Explicit Capture-Recapture Study Design	secrdesign-package secrdesign
Cost of SECR design	costing
Extract Summaries	coef.summary count count.summary predict.summary
Direct summary of estimate tables	estimateArray estimateSummary
Expand Argument List	expand.arg
SECR detector placement by maximisation of a simple criterion	GAoptim
Ballpark Detection Parameters	getdetectpar
Internal Functions	compactSample GApenfn outputtype outputtype<-
Expected Detections	En2 Enrm Lambda minnrRSE Qpm
Re-cast Simulated Statistical Output as Array	make.array
Construct Scenario Data Frame	make.scenarios
Optimal Spacing by Simulation	minsimRSE minsimRSE.optimalSpacing
Optimal Detector Spacing	optimalSpacing
Plot and print methods for optimalSpacing object	plot.optimalSpacing print.optimalSpacing
Extract Estimates From Fitted Models	coef coef.fittedmodels derived derived.fittedmodels predict predict.fittedmodels region.N region.N.fittedmodels
Combine Simulation Output	c.estimatetables c.selectedstatistics rbind.estimatetables rbind.selectedstatistics
Simulate Sampling Designs	fit.models run.scenarios
Detector saturation	saturation
Make Scenarios to Match Capture Statistics	scenariosFromStatistics
Summary of Scenarios	scenarioSummary
Select Statistics to Summarize	find.param find.stats select.stats
Generic Methods for secrdesign Objects	header plot.selectedstatistics summary.estimatetables summary.rawdata summary.secrdesign summary.selectedstatistics
Transform Simulation Output	transformOutput
Reject Implausible Statistics	validate