Package: eDNAjoint 0.2

Anon Maintainer

eDNAjoint: Joint Modeling of Traditional and Environmental DNA Survey Data in a Bayesian Framework

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 catchability coefficients for traditional gear types. Models are implemented with a Bayesian framework (Markov chain Monte Carlo) using the 'Stan' probabilistic programming language.

Authors:Anon Maintainer [aut, cre]

eDNAjoint_0.2.tar.gz
eDNAjoint_0.2.zip(r-4.5)eDNAjoint_0.2.zip(r-4.4)eDNAjoint_0.2.zip(r-4.3)
eDNAjoint_0.2.tgz(r-4.4-x86_64)eDNAjoint_0.2.tgz(r-4.4-arm64)eDNAjoint_0.2.tgz(r-4.3-x86_64)eDNAjoint_0.2.tgz(r-4.3-arm64)
eDNAjoint_0.2.tar.gz(r-4.5-noble)eDNAjoint_0.2.tar.gz(r-4.4-noble)
eDNAjoint.pdf |eDNAjoint.html
eDNAjoint/json (API)
NEWS

# Install 'eDNAjoint' in R:
install.packages('eDNAjoint', repos = c('https://ropensci.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/ropensci/ednajoint/issues

Uses libs:
  • c++– GNU Standard C++ Library v3
Datasets:

On CRAN:

7 exports 1 stars 4.20 score 68 dependencies 4 scripts 19 downloads

Last updated 3 days agofrom:adb3faaa27 (on master). Checks:OK: 1 NOTE: 8. Indexed: yes.

TargetResultDate
Doc / VignettesOKOct 11 2024
R-4.5-win-x86_64NOTEOct 11 2024
R-4.5-linux-x86_64NOTEOct 11 2024
R-4.4-win-x86_64NOTEOct 11 2024
R-4.4-mac-x86_64NOTEOct 11 2024
R-4.4-mac-aarch64NOTEOct 11 2024
R-4.3-win-x86_64NOTEOct 11 2024
R-4.3-mac-x86_64NOTEOct 11 2024
R-4.3-mac-aarch64NOTEOct 11 2024

Exports:detectionCalculatedetectionPlotjointModeljointSelectjointSummarizemuCriticaltraditionalModel

Dependencies:abindbackportsbayestestRBHcallrcheckmateclicolorspacecpp11data.tabledatawizarddescdistributionaldplyrfansifarvergenericsggplot2gluegridExtragtableinlineinsightisobandjsonlitelabelinglatticelifecycleloomagrittrMASSMatrixmatrixStatsmgcvmunsellnlmenumDerivpillarpkgbuildpkgconfigposteriorprocessxpspurrrQuickJSRR6RColorBrewerRcppRcppEigenRcppParallelrlangrlistrstanrstantoolsscalesStanHeadersstringistringrtensorAtibbletidyrtidyselectutf8vctrsviridisLitewithrXMLyaml