disdat (version 1.0-1)

AWT: Australian Wet Tropics species distribution data

Description

Species occurrence data for 40 species (20 vascular plants, 20 birds) in the Australian Wet Tropics (AWT) 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 or bird), 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). These are for sites from different surveys for plants (102 sites) and birds (340 sites), and can be returned as separate datasets by disEnv, or in one long format dataset by disData. These data are suited to make predictions to.

pa (testing data) includes group, site names, coordinates, and presence-absence records, one column per species (in the wide format returned by disPa). They can also be returned in long format using disData. The sites are identical to the sites in env. These data are suited to evaluating the predictions made with 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 UTM, zone 55, spheroid GRS 1980, datum GDA94 (EPSG:28355).

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
bc01	Annual mean temperature	degrees C	Continuous
bc04	Temperature seasonality	dimensionless	Continuous
bc05	Max. temperature of warmest period	degrees C	Continuous
bc06	Min. temperature of coldest period	degrees C	Continuous
bc12	Annual precipitation	mm	Continuous
bc15	Precipitation seasonality	dimensionless	Continuous
bc17	Precipitation of driest quarter	mm	Continuous
bc20	Annual mean radiation	MJ/m2/day	Continuous
bc31	Moisture index seasonality	dimensionless	Continuous
bc33	Mean moisture index of lowest quarter (MI)	dimensionless	Continuous
slope	Slope	percent	Continuous
topo	Topographic position	0 is a gully and 100 a ridge, 50 mid-slope	Continuous
tri	Terrain ruggedness index	Sum of variation in a 1 km moving window	Continuous

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

awt_po <- disPo("AWT")
awt_bg <- disBg("AWT")

awt_pa_plant <- disPa("AWT", "plant")
awt_env_plant <- disEnv("AWT", "plant")
awt_pa_bird <- disPa("AWT", "bird")
awt_env_bird <- disEnv("AWT", "bird")


# Or all in one list
awt <- disData("AWT")
sapply(awt, head)

disCRS("AWT")