BC: Biogeographic connectedness
In laurasoul/dispeRse: Models For Paleobiogeography

Description Usage Arguments Details Value Author(s) Examples

Biogeographic connectedness (sensu Sidor et al.).

BC(
  taxon_locality_matrix,
  tree = NULL,
  count.nodes = FALSE,
  permute.tree = TRUE,
  bootstrap = FALSE,
  jackknife = FALSE,
  resample.replicates = 1000,
  tree.replicates = 1000,
  k = 1000
)

`taxon_locality_matrix`	Presence-absence (1-0) matrix of taxa (rows) in localities (columns).
`tree`	Optional time-scaled phylogenetic tree of taxa in presence-absence matrix.
`count.nodes`	Option to count nodes rather than use branch-lengths.
`permute.tree`	Option to permute random trees by shuffling tips.
`bootstrap`	Option to bootstrap occurrences.
`jackknife`	Option to jacknife occurrences.
`resample.replicates`	Number of replicates to use for bootstrapping or jacknifing.
`tree.replicates`	Number of replicates to use if permuting trees.
`k`	Value to use to shorten tree and avoid increasing phylogenetic diversity artefact.

Nothing yet.

`BC_observed`	Empirical results for the: number of localities (`N_localities`), number of taxa (`N_taxa`), number of links (`N_links`), number of endemics (`N_endemics`), mean occurrences per locality (`Mean_occurrences_per_locality`), and biogeographic connectedness (`Biogeographic_connectedness`).
`BC_resampled`	Output for the resampled (bootstrap or jacknife) data if requested.
`BC_permuted`	Output for the permuted data if requested.