Introduction | Loading and using the software | Modelling faecal egg count reduction | Example data analysis | Discussion
Package: eggCounts 2.5-1
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:
eggCounts_2.5-1.tar.gz
eggCounts_2.5-1.tar.gz(r-4.7-arm64)eggCounts_2.5-1.tar.gz(r-4.7-x86_64)eggCounts_2.5-1.tar.gz(r-4.6-arm64)eggCounts_2.5-1.tar.gz(r-4.6-x86_64)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
eggCounts/json (API)
| # Install 'eggCounts' in R: |
| install.packages('eggCounts', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
Datasets:
- epgs - Faecal egg count samples
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated from:b214ed3776. Checks:5 OK, 1 FAIL. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-arm64 | OK | 530 | ||
| linux-devel-x86_64 | OK | 545 | ||
| source / vignettes | OK | 656 | ||
| linux-release-arm64 | OK | 578 | ||
| linux-release-x86_64 | OK | 1359 | ||
| wasm-release | FAIL | 159 |
Exports:fec_stanfecr_probsfecr_stanfecr_stanExtrafecr_stanSimplefecrtCIfecrtCI_LeveckegetPrior_deltagetPrior_muplotCountssimData1ssimData2sstan2mcmc
Dependencies:abindbackportsBHbootcallrcheckmateclicodacpp11descdistributionalfarvergenericsggplot2gluegridExtragtableinlineisobandlabelinglatticelifecycleloomagrittrmatrixStatsnumbersnumDerivotelpillarpkgbuildpkgconfigposteriorprocessxpsQuickJSRR6RColorBrewerRcppRcppEigenRcppParallelrlangrootSolverstanrstantoolsS7scalesStanHeaderstensorAtibbleutf8vctrsviridisLitewithr
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Hierarchical modelling of faecal egg counts | eggCounts-package |
| Faecal egg count samples (before and after treatment) | epgs |
| Modelling of faecal egg count data (one-sample case) | fec_stan |
| Compute probability of the reduction parameter relative to a given threshold | fecr_probs |
| Model the reduction of faecal egg count | fecr_stan |
| Model the reduction of faecal egg count using custom models | fecr_stanExtra |
| Model the reduction of faecal egg count using a simple Bayesian model | fecr_stanSimple |
| Compute standard FECRT according to WAAVP guidelines | fecrtCI fecrtCI_Levecke |
| Get prior parameters from Beta distribution | getPrior_delta |
| Get prior parameters from Gamma distribution | getPrior_mu |
| Plot faecal egg count data | plotCounts |
| Simulate faecal egg count data (1-sample situation) | simData1s |
| Simulate faecal egg count data (2-sample situation) | simData2s |
| Convert a Stanfit object to a MCMC object | stan2mcmc |