An easy-to-use tool for working with presence/absence tests on 'pooled' or 'grouped' samples. The primary application is for estimating prevalence of a marker in a population based on the results of tests on pooled specimens. This sampling method is often employed in surveillance of rare conditions in humans or animals (e.g. molecular xenomonitoring). The package was initially conceived as an R-based alternative to the molecular xenomonitoring software, 'PoolScreen' <https://sites.uab.edu/statgenetics/software/>. However, it goes further, allowing for estimates of prevalence to be adjusted for hierarchical sampling frames, and perform flexible mixed-effect regression analyses (McLure et al. Environmental Modelling and Software. <doi:10.1016/j.envsoft.2021.105158>). The package is currently in early stages, however more features are planned or in the works: e.g. adjustments for imperfect test specificity/sensitivity, functions for helping with optimal experimental design, and functions for spatial modelling.
Version: 0.2.0 Depends: R (≥ 3.4.0) Imports: brms, dplyr, lme4 (≥ 1.1-35.1), methods, progress, Rcpp (≥ 0.12.0), RcppParallel (≥ 5.0.1), rlang, rstan (≥ 2.26.0), rstantools (≥ 2.3.1.1), stats, stringr, tibble LinkingTo: BH (≥ 1.66.0), Rcpp (≥ 0.12.0), RcppEigen (≥ 0.3.3.3.0), RcppParallel (≥ 5.0.1), rstan (≥ 2.26.0), StanHeaders (≥ 2.26.0) Suggests: covr Published: 2024-12-05 DOI: 10.32614/CRAN.package.PoolTestR Author: Angus McLure [aut, cre], Caitlin Cherryh [ctb] Maintainer: Angus McLure <angus.mclure at anu.edu.au> BugReports: https://github.com/AngusMcLure/PoolTestR/issues License: GPL (≥ 3) URL: https://github.com/AngusMcLure/PoolTestR NeedsCompilation: yes SystemRequirements: GNU make Language: en-AU Citation: PoolTestR citation info Materials: README NEWS CRAN checks: PoolTestR results Documentation: Downloads: Linking:Please use the canonical form https://CRAN.R-project.org/package=PoolTestR to link to this page.
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