Introduction | Software for capture-recapture with a single source | Theoretical background | How to estimate population size with a single source? | Available models | Fitting method | Algorithm 1: The modified IRLS algorithm used in the singleRcapture package | Bootstrap variance estimators | Algorithm 2: Semi-parametric bootstrap | Algorithm 3: Parametric bootstrap | The main function | The estimatePopsize function | Controlling variance estimation with controlPopVar | Data analysis example | Dataset | Testing marginal frequencies | Diagnostics | The stratifyPopsize function | Classes and S3Methods | Concluding remarks | Acknowledgements | Detailed information | The estimatePopsizeFit function | Structure of a family function | Implementing a custom singleRcapture family function | References
Package: singleRcapture 1.1.0
Maciej Beręsewicz
singleRcapture: Single-Source Capture-Recapture Models
Implementation of single-source capture-recapture methods for population size estimation using zero-truncated, zero-one truncated and zero-truncated one-inflated Poisson, Geometric and Negative Binomial regression as well as Zelterman's, Chao's and ratio-regression estimators. Package includes point and interval estimators for the population size with variances estimated using analytical or bootstrap method. Details can be found in: van der Heijden et all. (2003) <doi:10.1191/1471082X03st057oa>, Böhning and van der Heijden (2019) <doi:10.1214/18-AOAS1232>, Böhning et al. (2020) Capture-Recapture Methods for the Social and Medical Sciences or Böhning and Friedl (2021) <doi:10.1007/s10260-021-00556-8>.
Authors:
singleRcapture_1.1.0.tar.gz
singleRcapture_1.1.0.zip(r-4.7)singleRcapture_1.1.0.zip(r-4.6)singleRcapture_1.1.0.zip(r-4.5)
singleRcapture_1.1.0.tgz(r-4.6-any)singleRcapture_1.1.0.tgz(r-4.5-any)
singleRcapture_1.1.0.tar.gz(r-4.7-any)singleRcapture_1.1.0.tar.gz(r-4.6-any)
singleRcapture_1.1.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
singleRcapture/json (API)
| # Install 'singleRcapture' in R: |
| install.packages('singleRcapture', repos = c('https://ncn-foreigners.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/ncn-foreigners/singlercapture/issues
Datasets:
- carcassubmission - The British farm carcass submissions data
- farmsubmission - The British farm submissions data
- netherlandsimmigrant - Immigration data in the Netherlands
Last updated from:b78f2b302d. Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | OK | 212 | ||
| source / vignettes | OK | 329 | ||
| linux-release-x86_64 | OK | 191 | ||
| macos-release-arm64 | OK | 148 | ||
| macos-oldrel-arm64 | OK | 204 | ||
| windows-devel | OK | 199 | ||
| windows-release | OK | 158 | ||
| windows-oldrel | OK | 212 | ||
| wasm-release | OK | 110 |
Exports:chaocontrolMethodcontrolModelcontrolPopVardfpopsizeestimatePopsizeestimatePopsizeFitHurdleztgeomHurdleztnegbinHurdleztpoissonmarginalFreqoichaooiztgeomoiztnegbinoiztpoissonpopSizeEstratioRegredoPopEstimationstratifyPopsizezeltermanzotgeomzotnegbinzotpoissonztgeomztHurdlegeomztHurdlenegbinztHurdlepoissonztnegbinztoigeomztoinegbinztoipoissonztpoisson
Dependencies:codetoolsdoParallelforeachiteratorslamWlatticemathjaxrRcppRcppParallelsandwichzoo
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| The British farm carcass submissions data | carcassubmission |
| Family functions in singleRcapture package | chao Hurdleztgeom Hurdleztnegbin Hurdleztpoisson oichao oiztgeom oiztnegbin oiztpoisson singleRmodels zelterman zotgeom zotnegbin zotpoisson ztgeom ztHurdlegeom ztHurdlenegbin ztHurdlepoisson ztnegbin ztoigeom ztoinegbin ztoipoisson ztpoisson |
| Confidence intervals for model parameters | confint.singleRStaticCountData |
| Control parameters for regression | controlMethod |
| Control parameters specific to some models | controlModel |
| Control parameters for population size estimation | controlPopVar |
| Heteroscedasticity-consistent covariance matrix estimation for singleRStaticCountData class | bread.singleRStaticCountData estfun.singleRStaticCountData vcovHC.singleRStaticCountData |
| Single-source capture-recapture models | estimatePopsize estimatePopsize.default |
| Regression fitting in single-source capture-recapture models | estimatePopsizeFit |
| The British farm submissions data | farmsubmission |
| Observed and fitted marginal frequencies | marginalFreq |
| Immigration data in the Netherlands | netherlandsimmigrant |
| Diagnostic Plots for Ratio Regression Fits | plot.singleRRatioReg |
| Diagnostic plots for regression and population size estimation | plot.singleRStaticCountData |
| Extract population size estimation results | popSizeEst popSizeEst.singleRRatioReg popSizeEst.singleRStaticCountData |
| Predict method for singleRStaticCountData class | predict.singleRStaticCountData |
| Estimate Population Size Using Ratio Regression | ratioReg |
| Updating population size estimation results | redoPopEstimation redoPopEstimation.singleRStaticCountData |
| Regression diagnostics in singleRcapture | cooks.distance.singleRStaticCountData dfbeta.singleRStaticCountData dfpopsize dfpopsize.singleRStaticCountData hatvalues.singleRStaticCountData influence.singleRStaticCountData regDiagSingleR residuals.singleRStaticCountData rstandard.singleRStaticCountData rstudent.singleRStaticCountData sigma.singleRStaticCountData |
| Generating data in singleRcapture | simulate simulate.singleRfamily simulate.singleRStaticCountData |
| Estimate size of sub-populations | stratifyPopsize stratifyPopsize.singleRStaticCountData |
| Statistical tests of goodness of fit | summary.singleRmargin |
| Summary Statistics for Ratio Regression Fits | summary.singleRRatioReg |
| Summary statistics for model of singleRStaticCountData class | summary.singleRStaticCountData |
| Obtain covariance matrix estimation | vcov.singleRStaticCountData |
