Compares the Distribution of Sister Clades Through a Phylogeny

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Documentation for package ‘nodiv’ version 1.4.2

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nodiv-package nodiv - Node-based analysis of species distributions
add_shape Add a shapefile to a 'nodiv' data object
add_sitestat Site statistics of 'nodiv' data objects
add_species_stat Species statistics of 'nodiv' data objects
assemblage Access functions to the community matrix of 'distrib_data' objects
basal_node Identify nodes in a phylogeny
coords Basic attributes of 'distrib_data' objects
coquettes Distribution of coquette hummingbirds in Northern South America
Descendants Identify nodes in a phylogeny
distrib_data Data objects for node-based analysis
GND Gives the SOS values for a given node.
gridData Apply a grid (2D bins) to nodiv objects of type 'points'
identify.distrib_data Data objects for node-based analysis
MostRecentAncestor Identify nodes in a phylogeny
nodenumbers Identify nodes in a phylogeny
nodes Identify nodes in a phylogeny
Nodesig Compare the distributions of a pair of sister clades
Node_analysis Calculate GND and SOS scores for a phylogeny and community data set
Node_occupancy Attributes of individual clades
Node_sites Attributes of individual clades
Node_size Attributes of individual clades
Node_species Attributes of individual clades
nodiv nodiv - Node-based analysis of species distributions
nodiv_data Data objects for node-based analysis
nodiv_result Calculate GND and SOS scores for a phylogeny and community data set
Nsites Basic attributes of 'distrib_data' objects
Nspecies Basic attributes of 'distrib_data' objects
occupancy Basic attributes of 'distrib_data' objects
occurrences Access functions to the community matrix of 'distrib_data' objects
Parent Identify nodes in a phylogeny
phyplot Plot Phylogenies
plot.distrib_data Data objects for node-based analysis
plot.nodiv_data Data objects for node-based analysis
plot.nodiv_result Calculate GND and SOS scores for a phylogeny and community data set
plotSOS Gives the SOS values for a given node.
plot_grid Plot a variable on spatial points or a spatial grid using a color scale.
plot_node Plot a richness map for an object of type distrib_data, nodiv_data or nodiv_result
plot_nodes_phylo Plot a phylogeny with colored node labels
plot_points Plot a variable on spatial points or a spatial grid using a color scale.
plot_richness Plot a richness map for an object of type distrib_data, nodiv_data or nodiv_result
plot_sitestat Site statistics of 'nodiv' data objects
plot_species Plot a variable on spatial points or a spatial grid using a color scale.
print.distrib_data Data objects for node-based analysis
print.nodiv_data Data objects for node-based analysis
print.nodiv_result Calculate GND and SOS scores for a phylogeny and community data set
print.summary_nodiv_result Calculate GND and SOS scores for a phylogeny and community data set
richness Basic attributes of 'distrib_data' objects
Sister Identify nodes in a phylogeny
sites Basic attributes of 'distrib_data' objects
sitestat Site statistics of 'nodiv' data objects
SOS Gives the SOS values for a given node.
species Basic attributes of 'distrib_data' objects
species_stat Species statistics of 'nodiv' data objects
subsample Subsampling data objects to certain species or sites
subsample.distrib_data Subsampling data objects to certain species or sites
subsample.nodiv_data Subsampling data objects to certain species or sites
subsample.nodiv_result Subsampling data objects to certain species or sites
summary.distrib_data Data objects for node-based analysis
summary.nodiv_data Data objects for node-based analysis
summary.nodiv_result Calculate GND and SOS scores for a phylogeny and community data set
two_color_map Plot the relative amounts of two variables using a purple-green color scheme
update_object Update 'distrib_data' objects to the 'nodiv' version >= 1.1 format