apples

Frequency count table for a microbial community sampled in the soil of an apple orchard in Switzerland.

datasets

Species richness estimation is an important problem in biodiversity analysis. This package provides methods for total species richness estimation (observed plus unobserved) and a method for modelling total diversity with covariates. breakaway() estimates total (observed plus unobserved) species richness. Microbial diversity datasets are characterized by a large number of rare species and a small number of highly abundant species. The class of models implemented by breakaway() is flexible enough to model both these features. breakaway_nof1() implements a similar procedure however does not require a singleton count. betta() provides a method for modelling total diversity with covariates in a way that accounts for its estimated nature and thus accounts for unobserved taxa, and betta_random() permits random effects modelling.

Amy Willis

breakaway

Species Richness Estimation and Modeling

apples function

Walsh et. al. (2014). Restricted streptomycin use in apple orchards did not adversely alter the soil bacteria communities. <em>Frontiers in Microbiology</em>, <b>4</b>.

apples: ``apples'' dataset

Description

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See Also