eDITH: Model Transport of Environmental DNA in River Networks

Runs the eDITH (environmental DNA Integrating Transport and Hydrology) model, which implements a mass balance of environmental DNA (eDNA) transport at a river network scale coupled with a species distribution model to obtain maps of species distribution. eDITH can work with both eDNA concentration (e.g., obtained via quantitative polymerase chain reaction) or metabarcoding (read count) data. Parameter estimation can be performed via Bayesian techniques (via the 'BayesianTools' package) or optimization algorithms. An interface to the 'DHARMa' package for posterior predictive checks is provided. See Carraro and Altermatt (2024) <doi:10.1111/2041-210X.14317> for a package introduction; Carraro et al. (2018) <doi:10.1073/pnas.1813843115> and Carraro et al. (2020) <doi:10.1038/s41467-020-17337-8> for methodological details.

Version: 1.0.0
Depends: R (≥ 3.6)
Imports: Rcpp (≥ 1.0.10), OCNet (≥ 1.1.0), rivnet (≥ 0.4.2), BayesianTools, LaplacesDemon, DHARMa, terra, fields
LinkingTo: Rcpp
Suggests: knitr, rmarkdown, bookdown
Published: 2024-05-24
Author: Luca Carraro [cre, aut], Florian Altermatt [aut], University of Zurich [cph, fnd]
Maintainer: Luca Carraro <luca.carraro at hotmail.it>
BugReports: https://github.com/lucarraro/eDITH/issues
License: MIT + file LICENSE
URL: https://lucarraro.github.io/eDITH/, https://github.com/lucarraro/eDITH
NeedsCompilation: yes
Citation: eDITH citation info
Materials: NEWS
CRAN checks: eDITH results

Documentation:

Reference manual: eDITH.pdf
Vignettes: An introduction to eDITH

Downloads:

Package source: eDITH_1.0.0.tar.gz
Windows binaries: r-devel: eDITH_0.3.0.zip, r-release: eDITH_1.0.0.zip, r-oldrel: eDITH_0.3.0.zip
macOS binaries: r-release (arm64): eDITH_1.0.0.tgz, r-oldrel (arm64): eDITH_1.0.0.tgz, r-release (x86_64): eDITH_1.0.0.tgz, r-oldrel (x86_64): eDITH_1.0.0.tgz
Old sources: eDITH archive

Linking:

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