BasalArea: tree and stand basal area. StandDensityIndex:
Reineke or summation stand density index. TreeBiomass: Chave et al.
(2014) above-ground biomass. CarbonStock: carbon and CO2-equivalent.
RasterizePoints: point-to-raster gridding (row 1 at the largest y).
CanopyHeightModel: DSM minus DTM. CanopyGaps: connected gaps
below a height threshold. TreeTops: circular local-maximum filter
with a fixed or height-dependent window. CrownSegmentation:
Dalponte-Coomes region growing. PlotEstimate,
StratifiedEstimate, AdaptiveClusterEstimate and
LineIntersectVolume: inventory estimators. Cell positions are
returned zero-based, as in the Python arm morie.fn.forestry.
Usage
BasalArea(dbh, expansion = 1)
StandDensityIndex(
dbh,
expansion = 1,
method = "reineke",
exponent = 1.605,
reference = 25.4
)
TreeBiomass(
dbh,
height = NULL,
wood_density = 0.6,
stress = NULL,
model = "chave2014"
)
CarbonStock(biomass, carbon_fraction = 0.47, root_shoot = 0)
RasterizePoints(x, y, z, res, fun = "max", extent = NULL)
CanopyHeightModel(dsm, dtm, floor = 0)
CanopyGaps(
chm,
height_threshold,
min_area = 0,
max_area = Inf,
res = 1,
connectivity = 8
)
TreeTops(chm, res = 1, hmin = 2, window = NULL)
CrownSegmentation(
chm,
tops = NULL,
search_window = 3,
th_seed = 0.45,
th_cr = 0.55,
dist = 10,
th = 0,
smooth = TRUE,
method = "dalponte"
)
PlotEstimate(values, plot_area, N = NULL)
StratifiedEstimate(values, strata, stratum_sizes)
AdaptiveClusterEstimate(networks, N, ids = NULL)
LineIntersectVolume(diameters, transect_length)Arguments
- dbh
Diameters at breast height (cm).
- expansion
Trees per hectare represented by each tree.
- method
"reineke"or"summation"(stand density);"dalponte"or"itcsegment"(crown segmentation).- exponent, reference
Reineke slope and reference diameter.
- height
Tree heights (m).
- wood_density
Wood density (g per cubic cm).
- stress
Environmental stress index E.
- model
Allometric model (
"chave2014").- biomass
Biomass values.
- carbon_fraction
Carbon fraction of dry biomass.
- root_shoot
Root-to-shoot ratio.
- x, y, z
Point coordinates and heights.
- res
Cell size.
- fun
"max","min"or"mean".- extent
Optional c(xmin, ymax, ncol, nrow).
- dsm, dtm
Surface and terrain models (matrices).
- floor
Lower bound of the canopy height.
- chm
Canopy height model (matrix).
- height_threshold
Gap height threshold.
- min_area, max_area
Gap area limits.
- connectivity
4 or 8.
- hmin
Minimum tree height.
- window
Fixed window diameter (NULL for the variable window).
- tops
Two-column matrix of zero-based tree-top cells (NULL: detect them with the search window).
- search_window
Odd window size of the seed search.
- th_seed, th_cr
Seed and crown-mean height fractions.
- dist
Maximum seed distance in cells.
- th
Height below which cells are ignored.
- smooth
Apply the 3 by 3 mean filter first.
- values
Plot totals or sampled values.
- plot_area
Plot area (ha).
- N
Population size (number of possible plots or units).
- strata
Stratum labels of the sampled values.
- stratum_sizes
Named vector of stratum sizes.
- networks
List of network value vectors.
- ids
Optional network identifiers.
- diameters
Intersect diameters (cm).
- transect_length
Total transect length (m).
References
Reineke, L. H. (1933). Perfecting a stand-density index for even-aged forests. Journal of Agricultural Research 46, 627-638.
Chave, J. et al. (2014). Improved allometric models to estimate the aboveground biomass of tropical trees. Global Change Biology 20, 3177-3190.
Popescu, S. C. and Wynne, R. H. (2004). Seeing the trees in the forest. Photogrammetric Engineering and Remote Sensing 70, 589-604.
Dalponte, M. and Coomes, D. A. (2016). Tree-centric mapping of forest carbon density from airborne laser scanning and hyperspectral data. Methods in Ecology and Evolution 7, 1236-1245.
Thompson, S. K. (1990). Adaptive cluster sampling. Journal of the American Statistical Association 85, 1050-1059.
Van Wagner, C. E. (1968). The line intersect method in forest fuel sampling. Forest Science 14, 20-26.