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: |
0.3.0 |
| Depends: |
R (≥ 3.6) |
| Imports: |
Rcpp (≥ 1.0.10), OCNet (≥ 1.1.0), rivnet (≥ 0.3.1), BayesianTools, LaplacesDemon, DHARMa, terra, fields |
| LinkingTo: |
Rcpp |
| Suggests: |
knitr, rmarkdown, bookdown |
| Published: |
2024-03-28 |
| 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:
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