RAC_change: Rank Abundance Curve Changes

Description Usage Arguments Value References Examples

View source: R/RAC_change.R

Description

Calculates change of the five aspects of rank abundance curves (richness, evenness, rank, species gains, and species losses) for a replicate between two time points.

Usage

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RAC_change(
  df,
  time.var,
  species.var,
  abundance.var,
  replicate.var = NULL,
  reference.time = NULL
)

Arguments

df

A data frame containing time, species, and abundance columns and an optional columns of replicates.

time.var

The name of the time column.

species.var

The name of the species column.

abundance.var

The name of the abundance column.

replicate.var

The name of the optional replicate column. If specified, replicate must be unique within the dataset and cannot be nested within treatments or blocks.

reference.time

The name of the optional time point that all other time points should be compared to (e.g. the first year of data). If not specified, each comparison is between consecutive time points (the first and second year, second and third year, etc.)

Value

The RAC_change function returns a data frame with a subset of the following columns:

References

Avolio et al. Submitted

Examples

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data(pplots)
# Without replicates
df <- subset(pplots, plot == 25)
RAC_change(df = df,
           species.var = "species",
           abundance.var = "relative_cover",
           time.var = "year")

# With replicates
df <- subset(pplots, year < 2004 & plot %in% c(6, 25, 32))
RAC_change(df = df,
           species.var = "species",
           abundance.var = "relative_cover",
           replicate.var = "plot",
           time.var = "year")
           
# With reference year
df <- subset(pplots, year < 2005 & plot %in% c(6, 25, 32))
RAC_change(df = df,
           species.var = "species",
           abundance.var = "relative_cover",
           replicate.var = "plot",
           time.var = "year",
           reference.time = 2002)

codyn documentation built on Dec. 1, 2020, 9:09 a.m.