ausplots_visual {ausplotsR} | R Documentation |
Graphical illustration of sample TERN AusPlots data
Description
Generates a set of graphical displays representing TERN AusPlots data based on geographic locations and vegetation attributes from the plot-based point intercepts (as generated by get_ausplots
and other pre-processing functions).
Usage
ausplots_visual(my.ausplots.object = NULL, map = TRUE, map.attribute = TRUE,
fraction.pie = TRUE, growthform.pie = TRUE, cumulative.cover = TRUE,
whittaker = TRUE, outfile=NULL, max.plots = 5)
map_ausplots(my.ausplots.object)
Arguments
my.ausplots.object |
Optional (but required for |
map |
Logical, whether to include a basic map of site locations in the context of Australia. |
map.attribute |
Logical, whether to include a map depicting site locations in Australia coded by cover of trees over 5 m high. |
fraction.pie |
Logical, whether to include pie charts depicting |
growthform.pie |
Logical, whether to include pie charts depicting relative cover of plant growth forms. |
cumulative.cover |
Logical, whether to include graphs of cumulative cover estimates by species as point intercepts are taken across each AusPlot. |
whittaker |
Logical, whether to include Whittaker plots depicting species abundance distributions. |
outfile |
Optional file path and name to which the output pdf file is written. |
max.plots |
Maximum number of sites for which to display individual graphics panels. By default, |
Details
By default, extracts sample data, allowing the user to explore the dataset in a single call, or to easily visualise an extracted AusPlots dataset. Included in the default demonstration plots are maps of plot locations with and without coding by tree cover, and then a set of four panels for a smaller sample of AusPlots, depicting data from the main vegetation tables in the package, i.e., fractional cover, growth form cover, species cover and species relative abundance. This function is intended as a simple demonstration of the data available. Refer to TERN tutorials for many other ways to visualise and explore AusPlots.
Value
Plots are written to a pdf file to ensure consistent formatting, saved by default in the working directory.
Author(s)
Greg Guerin, Bernardo Blanco-Martin
References
Blanco-Martin, B. (2019) Tutorial: Understanding and using the 'ausplotsR' package and AusPlots data. Terrestrial Ecology Research Network. Version 2019.04.0, April 2019. https://github.com/ternaustralia/TERN-Data-Skills/
Guerin, G.R., Sparrow, B., Tokmakoff, A., Smyth, A., Leitch, E., Baruch, Z., Lowe, A.J. (2017) Opportunities for integrated ecological analysis across inland Australia with standardised data from AusPlots Rangelands. PLoS ONE 12, e0170137.
Whittaker, R.H. (1965) Dominance and diversity in land plant communities: numerical relations of species express the importance of competition in community function and evolution. Science, 147, 250-260.
See Also
get_ausplots
fractional_cover
growth_form_table
single_cover_value
species_table
ausplots_trajectory
Examples
## Not run:
#Default output
#Plot locations; visualisations for 5 random plots (including revisits):
ausplots_visual()
#Map tree cover only for all sites:
#Extract data first:
my.data <- get_ausplots(veg.PI=TRUE)
#Set maximum number of plots to all available in the veg.PI data:
ausplots_visual(my.data, map = FALSE, map.attribute = TRUE,
fraction.pie = FALSE, growthform.pie = FALSE, cumulative.cover = FALSE,
whittaker = FALSE, outfile = "AusPlots_treeCover.pdf",
max.plots=length(unique(my.data$veg.PI$site_location_name)))
## End(Not run)