rich_tolerance: Richness of Tolerance Group

In zsmith27/Benthos: Benthos

Description

Richness of Tolerance Group

Usage

rich_tolerance(taxa.wide, master.df, tolerance.value = "BIBI_TV", lower.value,
  upper.value)

Arguments

taxa.wide	Taxonomic counts aggregated at the specific taxonomic classification (e.g., Order, Family, or Genus) in a wide data format. Use the wide function to prepare the data.
master.df	A master taxa list including taxonomic ranks Phylum through the specified taxonomic rank (Family or Genus) and the an associated list of tolerance values. The default is set to the master taxa list included in the BIBI package. The master taxa list can be viewed with the following script: master.df <- data(master)
tolerance.value	The name of the column in the master taxon list (specified using the master variable) that contains tolerance values on a scale of 0-10.
lower.value	The lower tolerance value bound.
upper.value	The upper tolerance value bound.

Value

The number of taxa that fall within the specified tolerance value bounds. Recommendations: Intolerant taxa (lower.value = 0, upper.value = 3), facultative taxa (lower.value = 4, upper.value = 6), and tolerant taxa (lower.value = 7, upper.value = 10).

zsmith27/Benthos documentation built on May 5, 2019, 2:38 a.m.