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...

Functions

admbsecr Man page
AIC.admbsecr Man page
bearings Man page
boot.admbsecr Man page
coef.admbsecr Man page
coef.admbsecr.boot Man page
confint.admbsecr Man page
confint.admbsecr.boot Man page
convert.capt Man page
convert.mask Man page
convert.pamguard Man page
convert.traps Man page
create.capt Man page
create.mask Man page
distances Man page
example Man page
get.bias Man page
get.mask Man page
get.mce Man page
get.par Man page
get.traps Man page
lightfooti Man page
locations Man page
make.acoustic.captures Man page
show.detfn Man page
show.detsurf Man page
show.survey Man page
sim.capt Man page
stdEr.admbsecr Man page
stdEr.admbsecr.boot Man page
summary.admbsecr Man page
test.admbsecr Man page
vcov.admbsecr Man page
vcov.admbsecr.boot Man page

Files

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.

Please suggest features or report bugs with the GitHub issue tracker.

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