Community matrices over posterior draws

Builds the community matrices of community_matrices() for each draw of history_draws() and summarises the frequency of each site x month x species cell by its posterior mean and an interval, so that the uncertainty of the calibration reaches the matrices. The per-draw frequencies are also returned, e.g. to repeat an ordination on each draw.

Usage

community_matrices_draws(
  history,
  core_species,
  k_min = 2,
  min_nights_month = 5,
  probs = c(0.05, 0.95)
)

Arguments

history

Table returned by history_draws().

core_species

Species codes (the species column) that enter the matrix.

k_min

Repetition rule: 1, 2 or 3 reliable detections on the night.

min_nights_month

Site x month cells with fewer recorded nights are dropped from the matrices (unstable frequencies) and flagged in effort.

probs

Probabilities of the interval.

Value

A list with summary (site, month, species, n_nights_recorded, frequency_mean, frequency_lower, frequency_upper) and draws (draw, site, month, species, frequency).