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oneimpact

DOI

oneimpact provides tools for the assessment of cumulative impacts of multiple infrastructure and land use modifications in ecological studies. The tools use R interface but the main calculations might be run in both R and GRASS GIS. The tools available so far are:

Zone of influence (ZOI) decay functions

  • zoi_functions: a set of decay zone of influence functions to characterize different shapes of the ZOI around infrastructure, parameterized based on the zone of influence radius. The functions implemented so far are: threshold (threshold_decay or step_decay), linear decay (linear_decay or bartlett_decay or tent_decay), exponential decay (exp_decay), or Gaussian decay (gaussian_decay or half_norm_decay).
  • plot_zoi1d: plot ZOI in 1 dimensional space for multiple points infrastructure, using both the ZOI of the nearest feature and the cumulative ZOI metric.

Compute zones of influence (ZOI):

  • calc_zoi_nearest: Calculate the zone of influence from the nearest infrastructure, according to multiple possible decay functions and zones of influence radii.
  • calc_zoi_cumulative: Calculate the cumulative zone of influence of multiple features, according to multiple possible decay functions and zones of influence radii.
  • calc_zoi: Calculate both the the ZOI of the nearest infrastructure and the cumulative ZOI, at multiple scales or zones of influence radii.

Spatial filters:

  • create_filter: Create filters or weight matrices for neighborhood analysis, according to different decay functions and parameterized using the zone of influence radius.
  • save_filter: Saves filters/weight matrices outside R for use within GRASS GIS modules.

Ancillary functions:

  • grass_binarize: Binarize continuous or multi-class categorical rasters within GRASS GIS. Binary maps may be used as input for cumulative zone of influence and kernel density calculation.
  • grass_v2rast_count: Rasterize a vector files counting the number of features within each pixel of the output raster. Count rasters may be used as input for cumulative zone of influence and kernel density calculation.

Support for landscape simulation:

  • set_points: simulate points in a landscape according to different rules and spatial patterns.

Installation

To install the development version of the oneimpact R package, please use:

library(devtools)
devtools::install_github("NINAnor/oneimpact", ref = "HEAD")

Run with Docker

docker run --rm -p 8787:8787 -e PASSWORD=rstudio -v $PWD/myproject:/home/rstudio/myproject ghcr.io/ninanor/oneimpact:main

If you use Compose:

docker compose run rstudio

You can customize docker-compose.yml based on your needs.

See also

The oneimpact functions are greatly based on neighborhood analyses made through the terra package in R and on three GRASS GIS modules: r.mfilter, r.resamp.filter, and r.neighbors. The connection between R and GRASS GIS is made through the rgrass7 R package.

Meta

  • Please report any issues or bugs.
  • License: GPL3
  • Get citation information for oneimpact in R running citation(package = 'oneimpact'), or check the reference here.
  • Contributions are mostly welcome!