An abundance and morphology-based similarity index
Dick, Daniel; Laflamme, Marc (2021), An abundance and morphology-based similarity index, Dryad, Dataset, https://doi.org/10.5061/dryad.rr4xgxd8x
Classic similarity indices measure community resemblance in terms of incidence (the number of shared species) and abundance (the extent to which the shared species are an equivalently large component of the ecosystem). Here we describe a general method for increasing the amount of information contained in the output of these indices and describe a new “soft” ecological similarity measure (here called soft Chao-Jaccard similarity). The new measure quantifies community resemblance in terms of shared species, while accounting for intraspecific variation in abundance and morphology between samples. We demonstrate how our proposed measure can reconstruct short ecological gradients using random samples of taxa, recognizing patterns that are completely missed by classic measures of similarity. To demonstrate the utility of our new index, we reconstruct a morphological gradient driven by river flow velocity using random samples drawn from simulated and real-world data. Results suggest that the new index can be used to recognize complex short ecological gradients in settings where only information about specimens is available. We include open-source R code for calculating the proposed index.
Author-created R code (DD), randomly generated data, and data pulled from published literature (see README document for more information).
Natural Sciences and Engineering Research Council of Canada, Award: PGSD3—504619—2017
Natural Sciences and Engineering Research Council of Canada, Award: RGPIN 435402