NCAP software archive

Computer code for fitting of nonlinear environmental gradients, written in the freely available R language.

Software written by Russell B. Millar. Last modified 17 Feb 2016.
Please give credit and appropriate citations if using this software.
No warranties etc.

Reference

Russell B. Millar and Marti J. Anderson. 2005. Fitting nonlinear environmental gradients to community data: A general distance-based approach. Ecology VOL: pp-pp.

Author(s)

Russell Millar
Department of Statistics
University of Auckland
Private Bag 92019
Auckland, New Zealand
e-mail: r.millar@auckland.ac.nz

Marti Anderson
Department of Statistics
University of Auckland
Private Bag 92019
Auckland, New Zealand
e-mail: mj.anderson@auckland.ac.nz

File list

NCAP.pdf - Documentation for the NCAP functions.
NCAP.R - R functions to implement nonlinear canonical correspondence analysis.
Holdfasts.R - R code to reproduce NCAP fits to the holdfast example.
NZHoldfastSpecies.dat - Holdfast species count data.
Environmentals.dat - Environmental variables (holdfast size and density) used in holdfast example.

Description

Complete R code and data for reproducing the results, including plots, for the holdfast example. The R language is freely available from CRAN(The Comprehensive R Archive Network).

To run, copy and paste the contents of Holdfasts.R... into an R session. The code creates a number of figures and two files that can be used to monitor the bootstraps and permutations (BootProgress.txt, PermProgress.txt).