phyloregion-package | Biogeographic regionalization and spatial conservation |
africa | Plants of southern Africa |
beta_core | Taxonomic (non-phylogenetic) beta diversity |
beta_diss | Taxonomic (non-phylogenetic) beta diversity |
choropleth | Bin values |
coldspots | Computes biodiversity coldspots and hotspots |
collapse_range | Collapse nodes and ranges based on divergence times |
dense2long | Conversion of community data |
dense2sparse | Conversion of community data |
EDGE | Evolutionary Distinctiveness and Global Endangerment |
evol_distinct | Species' evolutionary distinctiveness |
fishnet | Create a fishnet of regular grids |
get_clades | Get descendant nodes of phylogeny at a given time depth |
hexcols | Generate diverging colors in HCL colour space. |
hotspots | Computes biodiversity coldspots and hotspots |
indicators | Top driving species in phyloregions |
infomap | Calculate evolutionary distinctiveness of phyloregions |
long2dense | Conversion of community data |
long2sparse | Conversion of community data |
map_trait | Map species' trait values in geographic space |
match_phylo_comm | Match taxa and in phylogeny and community matrix |
mean_dist | Mean distance matrix from a set of distance matrices |
optimal_phyloregion | Determine optimal number of clusters |
PD | Phylogenetic diversity |
phylobeta | Phylogenetic beta diversity |
phylobeta_core | Phylogenetic beta diversity |
phylobuilder | Create a subtree with largest overlap from a species list. |
phyloregion | Calculate evolutionary distinctiveness of phyloregions |
phylo_endemism | Phylogenetic Endemism |
plot.phyloregion | Visualize biogeographic patterns |
plot_NMDS | Visualize biogeographic patterns |
plot_swatch | Plot shapefile polygons based on slot values |
points2comm | Convert raw input distribution data to community |
polys2comm | Convert raw input distribution data to community |
random_species | Generate random species distributions in space |
raster2comm | Convert raw input distribution data to community |
read.community | Read in sparse community matrices |
selectbylocation | Select features within polygon from another layer |
select_linkage | Cluster algorithm selection and validation |
sparse2dense | Conversion of community data |
sparse2long | Conversion of community data |
text_NMDS | Visualize biogeographic patterns |
timeslice | Slice phylogenetic tree at various time depths |
weighted_endemism | Measure the distribution of narrow-ranged or endemic species. |