add_singletons: Add singletons

In diazrenata/scadsanalysis: What the Package Does (One Line, Title Case)

Description

Modifies an SAD to add rare species that may have been missed during sampling. Takes the difference between the number of species estimated by the bias-corrected Chao and ACE estimators (as implemented in vegan::estimateR) and the observed number of species. Adds the average of these two differences to the observed dataframe, with each added species getting one individual each. use_max is an option to use a high estimate (estimated mean + estimated standard error) from the estimators before calculating the mean difference. Returns the original SAD with added records for the estimated rare species.

Usage

add_singletons(dat, use_max = F)

Arguments

dat	dataframe with columns rank, abund, site, dat, singletons, sim, and source. This is the format you will get if you use load_dataset and filter to a single site
use_max	use estimated richness + standard error? Defaults F, but T is used in pipelines.

Value

dataframe with additional records for estimated rare species

diazrenata/scadsanalysis documentation built on May 14, 2021, 6:59 p.m.