Code to assist the USFWS with eDNA field sampling designs for eDNA

This code supports the manuscript "Refinement of eDNA as an early monitoring tool at the landscape-level: Study design considerations". The code fit a three-level occupancy model with two detection assays in the program Stan through R. We programmed this code for a specific project with the USFWS and it will likely not generalize to other situations. The primary purpose of releasing this code is transparency and scientific reproducible.
However, this code could be adapted by people who understand Stan and want to create their own three-level occupancy model.