R codes supporting Carraro L, Stauffer JB, Altermatt F. How to design optimal eDNA sampling strategies for biomonitoring in river networks, environmental DNA (accepted), 2020.
prepare_OCN.R: creates and saves the OCN (OCN_eDNA.rda), and produces Figure 4 of the manuscriptperform_simulations.R: reads OCN_eDNA.rda and runs simulations. Results are saved in results_all.rdaanalyze_results.R: reads results_all.rda and produces Figures 1, 3, 5, 6, S1, S2, S3, S4, S5, S6, S8, S9, S10, S11prepare_OCN_SI.R: creates and saves the OCN (OCN_eDNA_SI.rda) used in the supporting information analysis (with Q0 = 2.5 m3s-1).perform_simulations_SI.R: reads OCN_eDNA_SI.rda and runs simulations. Results are saved in results_tau4_Q25.rda (as an example, all other 'results' files can be produced as well).analyze_results_SI.R: reads results_all.rda, results_tau4_Q25.rda, results_tau1_Q25.rda, results_tau1_Q10.rda, and produces Figure S7.eDITH_functions.R: functions implementing the eDITH model