abuocc {labdsv} | R Documentation |
Calculates and plots summary statistics about species occurrences in a data frame
abuocc(veg,minabu=0)
veg |
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) |
This functions calculates and plots four data summaries about the occurrence of species:
Plots
The third plot allows you to identify individual species with the mouse; the fourth plot allows you to identify individual samples with the mouse.
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) |
It's common in niche theory analyses to calculate the rank abundances
of taxa in a site. This function is similar, but works on multiple samples simultaneously.
The plt.spc vector in the returned list can be used to mask out rare species in
calculations of sample similarity using dsvdis
among other purposes.
David W. Roberts droberts@montana.edu http://ecology.msu.montana.edu/labdsv
http://ecology.msu.montana.edu/labdsv
## Not run: data(bryceveg) # produces a data.frame called bryceveg ## Not run: abuocc(bryceveg)