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| rdiversity-package | rdiversity: diversity measurement in R |
| ancestral_nodes | ancestral_nodes |
| chainsaw | Function to cut the phylogeny to a specified depth from the tip with the greatest distance from the root. |
| check_partition | Check partition matrix |
| check_phypartition | check_phypartition |
| check_similarity | Check similarity matrix |
| descendant_tips | descendant_tips |
| dist2sim | Distance to similarity |
| distance | Generate distance object |
| distance-class | distance-class |
| distance-method | Generate distance object |
| gen2dist | Genetic distance matrix |
| geneid | geneid |
| genevec | genevec |
| hs_parameters | Historical species parameters |
| inddiv | Calculate individual-level diversity |
| inddiv-method | Calculate individual-level diversity |
| metacommunity | Metacommunity |
| metacommunity-class | metacommunity-class |
| metacommunity-method | Metacommunity |
| metadiv | Metacommunity-level diversity |
| metadiv-method | Metacommunity-level diversity |
| meta_gamma | Metacommunity gamma diversity |
| norm_alpha | Normalised alpha (low level diversity component) |
| norm_beta | Normalised beta (low level diversity component) |
| norm_meta_alpha | Normalised metacommunity alpha diversity |
| norm_meta_beta | Normalised metacommunity beta diversity |
| norm_meta_rho | Normalised metacommunity rho diversity |
| norm_rho | Normalised rho (low level diversity component) |
| norm_sub_alpha | Normalised subcommunity alpha diversity |
| norm_sub_beta | Normalised subcommunity beta diversity |
| norm_sub_rho | Normalised subcommunity rho diversity |
| phy2branch | Phylogenetic similarity |
| phy2dist | Phylogenetic pairwise tip distance matrix |
| phy_abundance | Relative abundance of historical species |
| phy_struct | Calculate phylogenetic structure matrix |
| powermean | Calculate power mean |
| powermean-class | powermean-class |
| power_mean | Power mean of vector elements |
| raw_alpha | Raw alpha (low level diversity component) |
| raw_beta | Raw beta (low level diversity component) |
| raw_gamma | Gamma (low level diversity component) |
| raw_meta_alpha | Raw metacommunity alpha diversity |
| raw_meta_beta | Raw metacommunity beta diversity |
| raw_meta_rho | Raw metacommunity rho diversity |
| raw_rho | Raw rho (low level diversity component) |
| raw_sub_alpha | Raw subcommunity alpha diversity |
| raw_sub_beta | Raw subcommunity beta diversity |
| raw_sub_rho | Raw subcommunity rho diversity |
| rdiversity | rdiversity: diversity measurement in R |
| relativeentropy | Calculate relative entropy |
| relativeentropy-class | relativeentropy-class |
| repartition | Repartition metacommunity |
| show-method | distance-class |
| show-method | metacommunity-class |
| show-method | Calculate power mean |
| show-method | Calculate relative entropy |
| show-method | similarity-class |
| similarity | Generate similarity object |
| similarity-class | similarity-class |
| similarity-method | Generate similarity object |
| smatrix | Phylogenetic similarity matrix (ultrametric) |
| subdiv | Calculate subcommunity-level diversity |
| subdiv-method | Calculate subcommunity-level diversity |
| sub_gamma | Subcommunity gamma diversity |
| summarise | Summary function |
| tax2dist | Generate taxonomic distance matrix |
| taxfac | taxfac |
| taxid | taxid |
| taxmask | taxmask |
| taxvec | taxvec |
| tbar | Calculate T_bar |
| zmatrix | Similarity matrix |