R: Constancy-Coverage Table for Ecological Community Data

concov {labdsv}

R Documentation

Constancy-Coverage Table for Ecological Community Data

Description

Produces a table of combined species constancy and importance

Usage

concov(taxa,clustering,digits=1,width=5,typical=TRUE,thresh=10)

Arguments

`taxa`	a taxon data.frame, samples as rows and species as columns
`clustering`	a vector of (integer) cluster memberships, or an object of class ‘clustering’, class ‘partana’, or class ‘partition’
`digits`	the number of digits for the importance value of species
`width`	controls the formatting of columns
`typical`	an argument passed to `importance` to control how mean abundance is calculated
`thresh`	a theshold parameter to control the suppression of small details in the output. Species must have >= thresh constancy in at least one type to appear in the output table

Details

concov calls const and importance and then combines the output in a single table.

Value

a data.frame with factors (combined constancy and coverage) as columns

Note

Constancy-coverage tables are an informative and concise representation of species in classified types. The output format [constancy(mean cover)] follows the convention of the US Forest Service vegetation classifications.

Author(s)

David W. Roberts droberts@montana.edu

References

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

Examples

    data(bryceveg)  # returns a vegetation data.frame
    data(brycesite) # returns a site data.frame
    concov(bryceveg,brycesite$quad) # calculates the constance and coverage of
                                    # species by USGS quad map location

[Package labdsv version 1.6-1 Index]