Models integrate environmental DNA (eDNA) detection data and traditional survey data to jointly estimate species catch rate (see package vignette: <https://ednajoint.netlify.app/>). Models can be used with count data via traditional survey methods (i.e., trapping, electrofishing, visual) and replicated eDNA detection/nondetection data via polymerase chain reaction (i.e., PCR or qPCR) from multiple survey locations. Estimated parameters include probability of a false positive eDNA detection, a site-level covariates that scale the sensitivity of eDNA surveys relative to traditional surveys, and gear scaling coefficients for traditional gear types. Models are implemented with a Bayesian framework (Markov chain Monte Carlo) using the 'Stan' probabilistic programming language.
Version: 0.3.3 Depends: R (≥ 4.1) Imports: bayestestR, dplyr, ggplot2, lifecycle, loo, methods, Rcpp (≥ 0.12.0), RcppParallel (≥ 5.0.1), rlist, rstan (≥ 2.26.23), rstantools (≥ 2.3.1.1), tidyr, scales LinkingTo: BH (≥ 1.66.0), Rcpp (≥ 0.12.0), RcppEigen (≥ 0.3.3.3.0), RcppParallel (≥ 5.0.1), rstan (≥ 2.26.23), StanHeaders (≥ 2.26.22) Suggests: bayesplot, knitr, rmarkdown, testthat (≥ 3.0.0) Published: 2025-06-21 DOI: 10.32614/CRAN.package.eDNAjoint Author: Abigail G. Keller [aut, cre], Ryan P. Kelly [ctb], Chitra M. Saraswati [rev], Saras M. Windecker [rev] Maintainer: Abigail G. Keller <agkeller at berkeley.edu> BugReports: https://github.com/ropensci/eDNAjoint/issues License: GPL-3 URL: https://github.com/ropensci/eDNAjoint, https://docs.ropensci.org/eDNAjoint/ NeedsCompilation: yes SystemRequirements: GNU make Materials: README CRAN checks: eDNAjoint results Documentation: Downloads: Linking:Please use the canonical form https://CRAN.R-project.org/package=eDNAjoint to link to this page.
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