NZ: New Zealand species distribution data

In rspatial/disdat: Data for Comparing Species Distribution Modeling Methods

New Zealand species distribution data

Description

Species occurrence data for 52 vascular plant species - mostly trees and shrubs from indigenous forests - in New Zealand (NZ), and associated environmental data. Full details of the dataset are provided in the reference below. There are four data sets with training (po and bg) and test (pa, env) data:

po (training data) includes site names, species names, coordinates, occurrence ("1" for all, since all are presence records), group (plant), and site values for 13 environmental variables (below).

bg (training data) has 10000 sites selected at random across the study region. It is structured identically to po, with "0" for occurrence (not implying absence, but denoting a background record in a way suited to most modelling methods) and NA for group.

env (testing data) includes group, site names, coordinates, and site values for 13 environmental variables (below), at 19120 sites. These data are suited to making predictions.

pa (testing data) includes group, site names, coordinates, and presence-absence records, one column per species. The sites are identical to the sites in env. This file is suited to evaluating the predictions made to env.

Raster (gridded) data for all environmental variables are available - see the reference below for details.

The coordinate reference system of the x and y coordinates is New Zealand Map Grid (NZMG), Datum: NZGD49 (New Zealand Geodetic Datum 1949), Ellipsoid: International 1924 (EPSG:27200).

The vignette provided with this package provides an example of how to fit and evaluate a model with these data.

Environmental variables:

Code	Description	Units	Type
age	3 classes (0 to 2): <2000, 2000-postglacial (app. 30,000), and pre-glacial	number (category)	Categorical
deficit	Mean October vapor pressure deficit at 0900 hours	kPa	Continuous
dem	Elevation	meters	Continuous
hillshade	Hill shading (as surrogate for slope and aspect)	index of brightness	Continuous
mas	Mean annual solar radiation	Mj/m2/day	Continuous
mat	Mean annual temperature	degrees C * 10	Continuous
r2pet	Average monthly ratio of rainfall and potential evapotranspiration (ratio)	none	Continuous
rain	annual precipitation	mm	Continuous
slope	Slope	degrees	Continuous
sseas	Solar radiation seasonality	dimensionless	Continuous
toxicats	Toxic Cations in classes: 0=low, 1=intermediate, 2=high	number (category)	Categorical
tseas	Temperature seasonality	degrees C	Continuous
vpd	Mean October vapor pressure deficit at 9 AM	kPa	Continuous

Source

Environmental predictors provided by Jake Overton. Species data supplied by Jake Overton and Susan Wiser, from Allan Herbarium and National Vegetation Survey databank.

See the reference below for further details on source, accuracy, cleaning, and particular characteristics of these datasets.

References

Elith, J., Graham, C.H., Valavi, R., Abegg, M., Bruce, C., Ferrier, S., Ford, A., Guisan, A., Hijmans, R.J., Huettmann, F., Lohmann, L.G., Loiselle, B.A., Moritz, C., Overton, J.McC., Peterson, A.T., Phillips, S., Richardson, K., Williams, S., Wiser, S.K., Wohlgemuth, T. & Zimmermann, N.E., (2020). Presence-only and presence-absence data for comparing species distribution modeling methods. Biodiversity Informatics 15:69-80.

Examples

nz_po <- disPo("NZ")
nz_bg <- disBg("NZ")

nz_pa <- disPa("NZ")
nz_env <- disEnv("NZ")

x <- disData("NZ")
sapply(x, head)

disCRS("NZ")

rspatial/disdat documentation built on Feb. 14, 2023, 4:27 a.m.