select_metrics: Run All Metrics

In zsmith27/Benthos: Benthos

Description

Run All Metrics

Usage

select_metrics(long.df, master.df, taxa.rank, metrics.vec = "ALL",
  tv.col = "BIBI_TV", ffg.col = "BIBI_FFG", hab.col = "BIBI_HABIT",
  beck.col = "BECK_CLASS")

Arguments

long.df	Taxonomic counts in a long data format.
master.df	The master taxa list contains taxonomic ranks from Phylum to species and known taxonomic attributes.
taxa.rank	The lowest taxonomic rank ("ORDER", "FAMILY", or "GENUS") used to calculate the metrics. If the majority of your taxa are identified to the family level, then it would be inappropriate to perform metric calculations at the genus level.
metrics.vec	A vector of class character specifyin the metrics of interest. The vector must contain names specific to the Benthos package. Please review Benthos package documentation for a list of acceptable metric names. The defualt setting is "ALL", which indicates that all available Benthos metrics should be calculated.
tv.cols	The name of the tolerance value column you want to use during metric calculations.
ffg.cols	The name of the ffg value column you want to use during metric calculations.
hab.cols	The name of the habit value column you want to use during metric calculations.

Value

Calculates all of applicable and available metrics in the package.

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