r3.forestfrag - GRASS GIS manual

NAME

r3.forestfrag - Computes the forest fragmentation index (Riitters et al. 2000)

KEYWORDS

raster3d, landscape structure analysis, vegetation structure analysis, forest, fragmentation index, Riitters

SYNOPSIS

r3.forestfrag

r3.forestfrag --help

r3.forestfrag [-rtsa] input=name output=name size=number [pf=name] [pff=name] transitional_limit=float patch_limit=float [interior_limit=float] [color=string] [--overwrite] [--help] [--verbose] [--quiet] [--ui]

Flags:

-r: Set computational region to input raster map
-t: Keep Pf and Pff maps
-s: Run r.report on output map
-a: Trim the output map to avoid border effects
--overwrite: Allow output files to overwrite existing files
--help: Print usage summary
--verbose: Verbose module output
--quiet: Quiet module output
--ui: Force launching GUI dialog

Parameters:

input=name [required]: Name of forest raster map (where forest=1, non-forest=0)
output=name [required]: Name for output 3D raster map
size=number [required]: Moving window size (odd number); Options: 3-; Default: 3
pf=name: Name for output Pf (forest area density) raster map; Proportion of area which is forested (amount of forest)
pff=name: Name for output Pff (forest connectivity) raster map; Conditional probability that neighboring cell is forest
transitional_limit=float [required]: transitional_limit; Default: 0.6
patch_limit=float [required]: patch_limit; Default: 0.4
interior_limit=float: interior_limit
color=string: Source raster for colorization; Input and color_input are taken from input and color_input options respectively. The rest is computed using r.slope.aspect; Options: sambale, riitters, perceptual; Default: sambale; sambale: Sambale, Stefan Sylla; riitters: Riitters et. al 2000; perceptual: Perceptually uniform

DESCRIPTION
NOTES
REFERENCES
SEE ALSO
AUTHORS

DESCRIPTION

TODO: Create a description specific for 3D version r.forestfrag Computes the forest fragmentation following the methodology proposed by Riitters et. al (2000). See this article for a detailed explanation.

It follows a "sliding window" algorithm with overlapping windows. The amount of forest and its occurence as adjacent forest pixels within fixed- area "moving-windows" surrounding each forest pixel is measured. The window size is user-defined. The result is stored at the location of the center pixel. Thus, a pixel value in the derived map refers to "between-pixel" fragmentation around the corresponding forest location.

As input it requires a binary map with (1) forest and (0) non-forest. Obviously, one can replace forest any other land cover type. If one wants to exclude the influence of a specific land cover type, e.g., water bodies, it should be classified as no-data (NA) in the input map. See e.g., blog post.

Let Pf be the proportion of pixels in the window that are forested. Define Pff (strictly) as the proportion of all adjacent (cardinal directions only) pixel pairs that include at least one forest pixel, for which both pixels are forested. Pff thus (roughly) estimates the conditional probability that, given a pixel of forest, its neighbor is also forest. The classification model then identifies six fragmentation categories as:

interior:       Pf = 1.0
patch:          Pf < 0.4
transitional:   0.4 ≤ Pf < 0.6
edge:           Pf ≥ 0.6 and Pf - Pff < 0
perforated:     Pf ≥ 0.6 and Pf - Pff > 0
undetermined:   Pf ≥ 0.6 and Pf = Pff

NOTES

The moving window size is user-defined (default=3) and must be an odd number. If an even number is given the function will stop with an error message.
No-data cells are ignored. This means that statistics at the raster edges are based on fewer cells (smaller) moving windows. If this is a problem, the user can choose to have the output raster trimmed with a number of raster cells equal to 1/2 * the size of the moving window.
The function respects the region. The user has however the option to set the region to match the input layer.

REFERENCES

Petras, V., Newcomb D. J., Mitasova, H. 2017. Generalized 3D fragmentation index derived from lidar point clouds. Open Geospatial Data, Software and Standards 2017 2:9 DOI: 10.1186/s40965-017-0021-8
Riitters, K., J. Wickham, R. O'Neill, B. Jones, and E. Smith. 2000. Global-scale patterns of forest fragmentation. Conservation Ecology 4(2): 3. [online] URL: http://www.consecol.org/vol4/iss2/art3/

AUTHORS

Vaclav Petras, NCSU GeoForAll Lab
Paulo van Breugel, main author of the 2D version (r.forestfrag)

SOURCE CODE

Available at: r3.forestfrag source code (history)