Description Usage Arguments Details Value Examples
View source: R/selected_sites_DI.R
Computes dissimilarity indices for each set of selected
sites contained in elements of PAM_subset
that contain information of
species incidence (presence-absence). Calculations are done also among sets
of selected sites.
1 2 | selected_sites_DI(PAM_subset, selection_type = "all", method = "jaccard",
verbose = TRUE, ...)
|
PAM_subset |
object of class PAM_subset obtained using the function
|
selection_type |
type of selection to be considered when creating
dissimilarity matrices for elements in |
method |
(character) dissimilarity index to be passed to function
|
verbose |
(logical) whether or not to print messages about the process. Default = TRUE. |
... |
other arguments to be passed to function
|
Important details about the process performed to compute dissimilarity
indices can be seen in the documentation of vegdist
.
A list containing:
Dissimilarity matrices for all PAMs reduced based on distinct sets of selected sites.
A matrix summarizing incidences from all sets of selected sites.
A dissimilarity matrix for the summary of incidences for all sets of selected sites.
The result of clustering sets of selected sites based on dissimilarities.
1 2 3 4 5 6 7 8 9 | # Data
data("b_pam", package = "biosurvey")
data("m_selection", package = "biosurvey")
# Subsetting base PAM according to selections
sub_pam_all <- subset_PAM(b_pam, m_selection, selection_type = "all")
# Calculating dissimilarities
DI_sel <- selected_sites_DI(sub_pam_all)
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