calculate_energy: calculate_energy

In shar: Species-Habitat Associations

calculate_energy

Description

Calculate mean energy

Usage

calculate_energy(
  pattern,
  weights = c(1, 1),
  return_mean = FALSE,
  verbose = TRUE
)

Arguments

pattern	List with reconstructed patterns.
weights	Vector with weights used to calculate energy. The first number refers to Gest(r), the second number to pcf(r).
return_mean	Logical if the mean energy is returned.
verbose	Logical if progress report is printed.

Details

The function calculates the mean energy (or deviation) between the observed pattern and all reconstructed patterns (for more information see Tscheschel & Stoyan (2006) or Wiegand & Moloney (2014)). The pair correlation function and the nearest neighbour distance function are used to describe the patterns.

Value

vector

References

Kirkpatrick, S., Gelatt, C.D.Jr., Vecchi, M.P., 1983. Optimization by simulated annealing. Science 220, 671–680. <https://doi.org/10.1126/science.220.4598.671>

Tscheschel, A., Stoyan, D., 2006. Statistical reconstruction of random point patterns. Computational Statistics and Data Analysis 51, 859–871. <https://doi.org/10.1016/j.csda.2005.09.007>

Wiegand, T., Moloney, K.A., 2014. Handbook of spatial point-pattern analysis in ecology. Chapman and Hall/CRC Press, Boca Raton. ISBN 978-1-4200-8254-8

See Also

plot_energy
reconstruct_pattern
fit_point_process

Examples

pattern_random <- fit_point_process(species_a, n_random = 19)
calculate_energy(pattern_random)
calculate_energy(pattern_random, return_mean = TRUE)

## Not run: 
marks_sub <- spatstat.geom::subset.ppp(species_a, select = dbh)
marks_recon <- reconstruct_pattern_marks(pattern_random$randomized[[1]], marks_sub,
n_random = 19, max_runs = 1000)
calculate_energy(marks_recon, return_mean = FALSE)

## End(Not run)

shar documentation built on Oct. 23, 2023, 9:06 a.m.