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secr

Star Watch Copy Code

Spatially Explicit Capture-Recapture

View on CRAN: Click here

Download and install secr package within the R console
Install from CRAN:

 install.packages("secr")

Install from Github:

 library("remotes")

                        install_github("cran/secr")

Install by package version:

 library("remotes")

                        install_version("secr", "5.1.0")

Attach the package and use:

 library("secr")

Maintained by
Murray Efford
[Scholar Profile | Author Map]

All associated links for this package

First Published: 2010-03-11

Latest Update: 2023-07-10

Description:

Functions to estimate the density and size of a spatially distributed animal population sampled with an array of passive detectors, such as traps, or by searching polygons or transects. Models incorporating distance-dependent detection are fitted by maximizing the likelihood. Tools are included for data manipulation and model selection.

How to cite:

Murray Efford (2010). secr: Spatially Explicit Capture-Recapture. R package version 5.1.0, https://cran.r-project.org/web/packages/secr. Accessed 21 Nov. 2024.

Previous versions and publish date:

1.3.0 (2010-03-11 17:37), 1.4.0 (2010-05-07 14:24), 1.4.1 (2010-08-30 11:48), 1.5.1 (2010-12-03 09:33), 2.0.0 (2011-02-21 09:39), 2.1.0 (2011-06-17 10:36), 2.2.0 (2011-10-02 09:33), 2.3.0 (2011-11-20 11:03), 2.3.1 (2011-12-20 07:24), 2.3.2 (2012-05-15 08:38), 2.4.0 (2012-11-05 11:51), 2.5.0 (2013-01-23 20:54), 2.6.0 (2013-06-12 08:32), 2.6.1 (2013-06-28 00:47), 2.7.0 (2013-10-30 07:33), 2.8.0 (2014-03-31 12:00), 2.8.1 (2014-04-03 09:44), 2.8.2 (2014-04-30 07:50), 2.9.0 (2014-09-22 23:21), 2.9.1 (2014-11-18 23:05), 2.9.2 (2014-11-26 21:30), 2.9.3 (2015-01-11 16:53), 2.9.4 (2015-03-25 00:26), 2.9.5 (2015-06-16 01:28), 2.10.0 (2015-12-07 09:19), 2.10.2 (2016-01-09 13:57), 2.10.3 (2016-05-13 22:58), 2.10.4 (2016-12-04 14:52), 3.0.1 (2017-05-03 18:22), 3.1.0 (2017-09-20 14:32), 3.1.3 (2017-12-03 16:16), 3.1.5 (2018-02-25 17:58), 3.1.6 (2018-05-14 06:33), 3.1.7 (2018-10-04 07:40), 3.1.8 (2018-11-19 06:40), 3.2.0 (2019-01-25 06:50), 3.2.1 (2019-06-03 17:40), 4.0.2 (2019-11-11 14:50), 4.1.0 (2019-12-17 13:30), 4.2.0 (2020-02-22 07:30), 4.2.2 (2020-04-09 12:10), 4.3.0 (2020-07-14 11:10), 4.3.1 (2020-09-01 15:00), 4.3.3 (2020-12-11 13:30), 4.4.1 (2021-04-30 18:20), 4.4.4 (2021-06-01 13:20), 4.4.5 (2021-07-12 07:10), 4.4.7 (2021-10-18 06:40), 4.4.8 (2021-11-09 11:00), 4.5.0 (2022-01-06 16:40), 4.5.1 (2022-01-18 17:30), 4.5.3 (2022-02-14 00:10), 4.5.4 (2022-04-22 04:50), 4.5.5 (2022-05-31 06:00), 4.5.6 (2022-08-15 11:30), 4.5.7 (2022-10-08 23:10), 4.5.8 (2022-11-29 11:20), 4.5.10 (2023-03-10 01:10), 4.6.0 (2023-05-23 06:30), 4.6.1 (2023-07-11 01:40), 4.6.4 (2023-10-18 00:00), 4.6.5 (2024-02-17 22:10), 4.6.6 (2024-02-29 23:30), 4.6.7 (2024-06-05 23:10), 4.6.9 (2024-06-29 04:50), 4.6.10 (2024-08-22 14:40), 5.0.0 (2024-10-02 10:30)

Other packages that cited secr R package

View secr citation profile

Other R packages that secr depends, imports, suggests or enhances

View secr dependency map

Complete documentation for secr

View documentation PDF

Functions, R codes and Examples using the secr R package

Some associated functions: AIC.secr . AICcompatible . CV . D.designdata . DA . DENSITY . Dsurface . FAQ . Fletcher.chat . LLsurface . LRtest . OVpossum . PG . Parallel . RMarkInput . RSE . Rsurface . addCovariates . addSightings . addTelemetry . as.data.frame . as.mask . as.popn . autoini . capthist . capthistfn . chat . circular . clone . closedN . closure . cluster . coef.secr . collate . confint.secr . contour . coulombe . covariates . deermouse . deletemaskpoints . derivedMS . details . detectfn . detector . deviance.secr . discretize . distancetotrap . ellipse.secr . empirical . esaplot . esaplotsecr . expected.n . extractMoves . fx.total . fxi . gridcells . hcov . head . homerange . hornedlizard . join . kfn . logit . logmultinom . make.capthist . make.lacework . make.mask . make.systematic . make.traps . make.tri . makeStart . manip . mask.check . mask . modelAverage . ms . nontarget . occasionKey . ovenbird . ovensong . par.secr.fit . pdot . plot.capthist . plot.mask . plot.popn . plot.secr . plot.traps . plotmaskedge . pmixProfileLL . pointsInPolygon . polyarea . popn . possum . predict.secr . predictDsurface . print.capthist . print.secr . print.traps . randomHabitat . raster2 . rbind.capthist . rbind.popn . rbind.traps . read.mask . read.telemetry . read.traps . rectangularMask . reduce.capthist . reduce . region.N . score.test . secr-defunct . secr-deprecated . secr-internal . secr-package . secr.design.MS . secr.fit . secr.make.newdata . secr.test . secrRNG . secrdemo . secrtest . session . setNumThreads . sharefactorlevels . sighting . signal . signalmatrix . sim.capthist . sim.popn . sim.secr . skink . smooths . snip . sort . spacing . speed . stoatDNA . strip.legend . subset.capthist . subset.mask . subset.popn . subset.traps . suggest.buffer . summary.capthist . summary.mask . summary.popn . summary.traps . timevaryingcov . transformations . trap.builder . traps . trapsfn . trend . trim . troubleshooting . turnover . updateCH . usage . usagePlot . userdist . utility . vcov.secr . verify . write . writeGPS .
Some associated R codes: AIC.R . CV.R . ClosedN.R . D.designdata.R . DA.R . DENSITY.R . Dsurface.R . Enk.R . Fewstervarn.R . Fletcher.chat.R . LLsurface.secr.R . LRtest.R . PG.R . RMarkInput.R . RSE.R . RcppExports.R . Rsurface.R . addCovariates.R . addSightings.R . addTelemetry.R . as.data.frame.R . autoini.R . chatnk.R . circular.R . clone.R . closure.R . collate.R . confint.secr.R . derivedMS.R . deviance.R . discretize.R . distancetotrap.R . ellipse.secr.R . empirical.R . esa.R . esa.plot.R . extractMoves.R . fastsecrloglik.R . fxi.R . generalsecrloglik.R . gridcells.R . head.R . homerange.R . join2.R . kfn.R . loglikhelperfn.R . logmultinom.R . make.capthist.R . make.grid.R . make.mask.R . make.tri.R . makeStart.R . mask.check.R . methods.R . model.average.R . modelAverage.R . onAttach.R . onLoad.R . par.secr.fit.R . pdot.R . plot.popn.R . plot.secr.R . plot.traps.R . plotMaskEdge.R . pmixProfileLL.R . predict.secr.R . preparedata.R . randomHabitat.R . raster.R . rbind.capthist.R . rbind.mask.R . rbind.popn.R . rbind.traps.R . read.mask.R . read.traps.R . reduce.R . regionN.R . reparameterize.R . score.test.R . secr.design.MS.R . secr.fit.R . secr.make.newdata.R . secr.test.R . setNumThreads.R . sim.capthist.R . sim.popn.R . sim.secr.R . snip.R . split.capthist.R . split.mask.R . split.traps.R . suggest.buffer.R . summary.capthist.R . summary.mask.R . summary.popn.R . summary.secr.R . summary.traps.R . superN.R . telemetry.R . trap.builder.R . trend.R . usagePlot.R . utility.R . verify.R . write.captures.R . write.mask.R . write.traps.R . writeGPS.R . Full secr package functions and examples

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