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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 |
| DOI: | 10.32614/CRAN.package.eDITH |
| 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 |
| Reference manual: | eDITH.pdf |
| Vignettes: |
An introduction to eDITH |
| Package source: | eDITH_1.0.0.tar.gz |
| Windows binaries: | r-devel: eDITH_1.0.0.zip, r-release: eDITH_1.0.0.zip, r-oldrel: eDITH_1.0.0.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 |
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These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.