Code to evaluate detection probabilities of limestone salamanders (Hydromantes brunus) with eDNA and visual encounter surveys

The code in this repository generates and analyzes directed acyclic graphs (DAGs) representing hypotheses about variables affecting the occurrence and surface availability of Plethodon salamanders in northern California; formats data from field surveys and and laboratory results for analysis; and analyzes multi-scale integrated occupancy models, including model selection, to evaluate the model and variables with the best predictive performance for evaluating surface availability and detection of the salamanders.