Occupancy Analysis
Using the observed percentage agreement of the two methods of 0.84 (1 =
100%) and the probability of random agreement of 0.64, Cohen’s kappa
coefficient was calculated as 0.56 for manual survey-positive ponds
versus their qPCR analysis results i.e. moderate agreement.
Site occupancy modelling was used to calculate the occupancy estimate
and the probability of detection of S. nitida. Using the combined
manual survey and qPCR assay results the occupancy estimate was
calculated to be 0.35 (95% CRI 0.19, 0.56) with a probability of
detection of 0.67 (Table 2).