env.part: Partitions environmental gradient for analysis

In dkahle/TITAN2: Threshold Indicator Taxa Analysis

Partitions environmental gradient for analysis

Description

This function compares the number of records in the environmental vector and the umber of rows in the taxa matrix to ensure they are compatible. It then uses the rank order of environmental values at each sampling location to determine group membership of all sampling sites at each level of partitioning.

Usage

env.part(env, taxa, minSplt = minSplt, messaging = TRUE)

Arguments

env	A vector of values for each sampling location along the environmental gradient.
taxa	A site by taxon matrix containing observed counts at each sampling location.
minSplt	The minimum split size used in binary partitioning. The default is to use the argument from the original TITAN function call.
messaging	message user?

Value

A list of seven objects:

env

an environmental vector

numUnit

the number of sample units in env

numTxa

the number of distinct taxonomic units in taxa

numClass

the number of candidate partitions (numUnit-2*minSplt)

srtEnv

a sorted version of the environmental vector

envcls

a vector of environmental values used to distinguish partitions

eclass

a matrix of group membership relative to each partition in envcls

Author(s)

M. Baker and R. King

References

Baker, ME and RS King. 2010. A new method for detecting and interpreting biodiversity and ecological community thresholds. Methods in Ecology and Evolution 1(1): 25:37.

dkahle/TITAN2 documentation built on Nov. 15, 2023, 2:49 p.m.