Model Transport of Environmental DNA in River Networks
Determine optimal spatial arrangement for eDNA sampling
Model Transport of Environmental DNA In River Networks
Evaluate posterior predictions from an eDITH run
Predictive posterior simulations from an eDITH run
Run eDITH with BayesianTools based on joint eDNA and direct sampling d...
Run eDITH with BayesianTools
Optimize eDITH based on joint eDNA and direct sampling data
Optimize eDITH
Run eDITH for a single parameter set
Determine optimal spatial arrangement for direct sampling
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.
Useful links