labdsv (version 1.2-0)

abuocc: Abundance/Occurrence Graphical Analysis

Description

Calculates and plots summary statistics about species occurrences in a data frame

Usage

abuocc(taxa,minabu=0)

Arguments

taxa

a vegetation (or other taxon) dataframe with samples as rows and species as columns

minabu

a minimum abundance threshold species must exceed to be included in the calculations (default=0)

Value

• Returns an (invisible) list composed of:
• spc.plt
  number of species/sample
• plt.spc
  number of samples each species occurs in
• mean.abu
  mean abundance of each species when present (excluding values smaller then minabu)

Details

This functions calculates and plots four data summaries about the occurrence of species:

Plots:

1) the number of samples each species occurs in on a log scale, sorted from maximum to minimum

2) the number of species in each sample plot (species richness) from highest to lowest

3) the mean abundance of non-zero values (on a log scale) as a function of the number of plots a species occurs in

4) the total abundance/sample as a function of the plot-level species richness The third plot allows you to identify individual species with the mouse; the fourth plot allows you to identify individual samples with the mouse.

References

http://ecology.msu.montana.edu/labdsv/R

See Also

fisherfit, prestonfit, radfit

Examples

data(bryceveg) # produces a data.frame called bryceveg
    abuocc(bryceveg)