Package: eggCounts 2.4

Craig Wang

eggCounts: Hierarchical Modelling of Faecal Egg Counts

An implementation of Bayesian hierarchical models for faecal egg count data to assess anthelmintic efficacy. Bayesian inference is done via MCMC sampling using 'Stan' <https://mc-stan.org/>.

Authors:Craig Wang [aut, cre], Michaela Paul [aut], Tea Isler [ctb], Reinhard Furrer [ctb], Trustees of Columbia University [cph]

eggCounts_2.4.tar.gz
eggCounts_2.4.tar.gz(r-4.5-noble)eggCounts_2.4.tar.gz(r-4.4-noble)
eggCounts.pdf |eggCounts.html✨
eggCounts/json (API)
NEWS

# Install 'eggCounts' in R:
install.packages('eggCounts', repos = 'https://cloud.r-project.org')

Pkgdown site:https://www.math.uzh.ch

Uses libs:
  • c++– GNU Standard C++ Library v3
Datasets:
  • epgs - Faecal egg count samples

On CRAN:

Conda:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

cpp

3.00 score 395 downloads 13 mentions 12 exports 57 dependencies

Last updated 1 years agofrom:c3411f6a00. Checks:1 OK, 2 NOTE. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKMar 27 2025
R-4.5-linux-x86_64NOTEMar 27 2025
R-4.4-linux-x86_64NOTEMar 27 2025

Exports:fec_stanfecr_probsfecr_stanfecr_stanExtrafecr_stanSimplefecrtCIgetPrior_deltagetPrior_muplotCountssimData1ssimData2sstan2mcmc

Dependencies:abindbackportsBHbootcallrcheckmateclicodacolorspacedescdistributionalfansifarvergenericsggplot2gluegridExtragtableinlineisobandlabelinglatticelifecycleloomagrittrMASSMatrixmatrixStatsmgcvmunsellnlmenumbersnumDerivpillarpkgbuildpkgconfigposteriorprocessxpsQuickJSRR6RColorBrewerRcppRcppEigenRcppParallelrlangrootSolverstanrstantoolsscalesStanHeaderstensorAtibbleutf8vctrsviridisLitewithr

eggCounts: a Bayesian hierarchical toolkit to model faecal egg count reductions

Rendered fromeggCounts_vignettes.pdf.asisusingR.rsp::asison Mar 27 2025.

Last update: 2023-08-25
Started: 2018-05-02

Citation

To cite `eggCounts` individual efficacy model, zero-inflation models, other models and `eggCounts` package in publication use:

Wang, C., Torgerson, P. R., Kaplan, R.M., George, M.M., and Furrer, R. (2018). Modelling anthelmintic resistance by extending eggCounts package to allow individual efficacy, International Journal for Parasitology: Drugs and Drug Resistance, 8(3), 386--393.

Wang, C., Torgerson, P. R., Hoeglund, J. and Furrer, R. (2017). Zero-inflated hierarchical models for faecal egg counts to assess anthelmintic efficacy,Veterinary Parasitology, 235, 20--28.

Torgerson, P. R., Paul, M.. and Furrer, R. (2014). Evaluating faecal egg count reduction using a specifically designed package 'eggCounts' in {R} and a user friendly web interface, Veterinary Parasitology, 44, 299--303.

Wang, C. and Paul, M. (2019). eggCounts: Hierarchical Modelling of Faecal Egg Counts. R package version 2.2. https://CRAN.R-project.org/package=eggCounts

Corresponding BibTeX entries: 

  @Article{,
    title = {Modelling anthelmintic resistance by extending eggCounts
      package to allow individual efficacy},
    author = {Craig Wang and Paul R. Torgerson and Ray M. Kaplan and
      Melissa M. George and Reinhard Furrer},
    journal = {International Journal for Parasitology: Drugs and Drug
      Resistance},
    year = {2018},
    volume = {8},
    doi = {10.1016/j.ijpddr.2018.07.003},
    issn = {2211-3207},
    pages = {386--393},
  }

  @Article{,
    title = {Zero-inflated hierarchical models for faecal egg counts to
      assess anthelmintic efficacy},
    author = {Craig Wang and Paul R. Torgerson and Johan Hoeglund and
      Reinhard Furrer},
    journal = {Veterinary Parasitology},
    year = {2017},
    volume = {235},
    doi = {10.1016/j.vetpar.2016.12.007},
    issn = {0304-4017},
    pages = {20--28},
  }

  @Article{,
    title = {Evaluating faecal egg count reduction using a specifically
      designed package 'eggCounts' in {R} and a user friendly web
      interface},
    author = {Craig Wang and Paul R. Torgerson and Johan Hoeglund and
      Reinhard Furrer},
    journal = {International Journal for Parasitology},
    year = {2014},
    volume = {44},
    doi = {10.1016/j.ijpara.2014.01.005},
    pages = {299--303},
  }

  @Manual{,
    title = {eggCounts: Hierarchical Modelling of Faecal Egg Counts},
    author = {Craig Wang and Michaela Paul},
    year = {2018},
    note = {R package version 2.2},
    url = {https://CRAN.R-project.org/package=eggCounts},
  }