admbsecr: SECR models with supplementary location information

This package allows for the fitting of spatially explicit capture-recapture (SECR) models. In particular, it is focussed on a class of SECR model which makes use of supplementary information which is informative on animal location.

AuthorBen Stevenson <bcs5@st-andrews.ac.uk>, David Borchers <dlb@st-andrews.ac.uk>
Date of publication2014-06-17 22:16:51
MaintainerBen Stevenson <bcs5@st-andrews.ac.uk>
LicenseGPL
Version1.0.6
https://github.com/b-steve/admbsecr

View on R-Forge

Man pages

admbsecr: Fitting SECR models in ADMB

AIC.admbsecr: Extract AIC from an admbsecr model object

bearings: Calculating bearings between two sets of points

boot.admbsecr: Bootstrapping SECR data

coef.admbsecr: Extract admbsecr model coefficients

confint.admbsecr: Confidence intervals for admbsecr model parameters

convert.capt: Convert capture history object

convert.mask: Convert mask object

convert.pamguard: Create a capture history object from a PAMGuard output file

convert.traps: Convert traps object

create.capt: Creating capture history object.

create.mask: Create mask object

distances: Calculating distances between two sets of points

example: Example data

get.bias: Extracting estimated biases

get.mask: Extracting mask point locations

get.mce: Extracting Monte Carlo error

get.par: Extract estimated or fixed parameter values from an...

get.traps: Extracting trap locations

lightfooti: _Arthroleptella lightfooti_ survey data

locations: Plotting estimated locations

make.acoustic.captures: Assigning ID numbers to sounds.

show.detfn: Plotting a detection function.

show.detsurf: Plotting the detection probability surface

show.survey: Plotting mask and trap layout

sim.capt: Simulating SECR data

stdEr.admbsecr: Extract standard errors from an admbsecr model fit

stdEr.admbsecr.boot: Extract standard errors from a bootstrapped admbsecr model...

summary.admbsecr: Summarising admbsecr model fits

test.admbsecr: Run admbsecr tests

vcov.admbsecr: Extract the variance-covariance matrix from an admbsecr model...

vcov.admbsecr.boot: Extract the variance-covariance matrix from a bootstrapped...

Files in this package

admbsecr/BinaryFiles
admbsecr/DESCRIPTION
admbsecr/NAMESPACE
admbsecr/NEWS
admbsecr/R
admbsecr/R/RcppExports.R
admbsecr/R/admbsecr.r
admbsecr/R/autofuns.r
admbsecr/R/boot.r
admbsecr/R/convert.r
admbsecr/R/detfns.r
admbsecr/R/helpers.r
admbsecr/R/locations.r
admbsecr/R/methods.r
admbsecr/R/simcapt.r
admbsecr/R/surveyplots.r
admbsecr/R/test.r
admbsecr/README.md
admbsecr/data
admbsecr/data/example.RData
admbsecr/data/lightfooti.RData
admbsecr/inst
admbsecr/inst/ADMB
admbsecr/inst/ADMB/bin
admbsecr/inst/ADMB/bin/linux
admbsecr/inst/ADMB/bin/linux/secr
admbsecr/inst/ADMB/bin/linux/secr_new
admbsecr/inst/ADMB/bin/mac
admbsecr/inst/ADMB/bin/mac/secr
admbsecr/inst/ADMB/bin/windows
admbsecr/inst/ADMB/bin/windows/secr.exe
admbsecr/inst/ADMB/src
admbsecr/inst/ADMB/src/densfuns.cpp
admbsecr/inst/ADMB/src/detfuns.cpp
admbsecr/inst/ADMB/src/invlinkfuns.cpp
admbsecr/inst/ADMB/src/secr.tpl
admbsecr/inst/data-simulation.r
admbsecr/inst/testthat
admbsecr/inst/testthat/test-args.r
admbsecr/inst/testthat/test-boot.r
admbsecr/inst/testthat/test-convert.r
admbsecr/inst/testthat/test-detfns.r
admbsecr/inst/testthat/test-errors.r
admbsecr/inst/testthat/test-fits.r
admbsecr/inst/testthat/test-helpers.r
admbsecr/inst/testthat/test-plots.r
admbsecr/inst/testthat/test-simcapt.r
admbsecr/man
admbsecr/man/AIC.admbsecr.Rd admbsecr/man/admbsecr.Rd admbsecr/man/bearings.Rd admbsecr/man/boot.admbsecr.Rd admbsecr/man/coef.admbsecr.Rd admbsecr/man/confint.admbsecr.Rd admbsecr/man/convert.capt.Rd admbsecr/man/convert.mask.Rd admbsecr/man/convert.pamguard.Rd admbsecr/man/convert.traps.Rd admbsecr/man/create.capt.Rd admbsecr/man/create.mask.Rd admbsecr/man/distances.Rd admbsecr/man/example.Rd admbsecr/man/get.bias.Rd admbsecr/man/get.mask.Rd admbsecr/man/get.mce.Rd admbsecr/man/get.par.Rd admbsecr/man/get.traps.Rd admbsecr/man/lightfooti.Rd admbsecr/man/locations.Rd admbsecr/man/make.acoustic.captures.Rd admbsecr/man/show.detfn.Rd admbsecr/man/show.detsurf.Rd admbsecr/man/show.survey.Rd admbsecr/man/sim.capt.Rd admbsecr/man/stdEr.admbsecr.Rd admbsecr/man/stdEr.admbsecr.boot.Rd admbsecr/man/summary.admbsecr.Rd admbsecr/man/test.admbsecr.Rd admbsecr/man/vcov.admbsecr.Rd admbsecr/man/vcov.admbsecr.boot.Rd
admbsecr/src
admbsecr/src/Makevars
admbsecr/src/Makevars.win
admbsecr/src/RcppExports.cpp
admbsecr/src/funs.cpp

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

All documentation is copyright its authors; we didn't write any of that.