nodiv: Compares the Distribution of Sister Clades Through a Phylogeny

An implementation of the nodiv algorithm, see Borregaard, M.K., Rahbek, C., Fjeldsaa, J., Parra, J.L., Whittaker, R.J. & Graham, C.H. 2014. Node-based analysis of species distributions. Methods in Ecology and Evolution 5(11): 1225-1235. <DOI:10.1111/2041-210X.12283>. Package for phylogenetic analysis of species distributions. The main function goes through each node in the phylogeny, compares the distributions of the two descendant nodes, and compares the result to a null model. This highlights nodes where major distributional divergence have occurred. The distributional divergence for these nodes is mapped using the SOS statistic.

Install the latest version of this package by entering the following in R:
install.packages("nodiv")
AuthorMichael Krabbe Borregaard
Date of publication2017-02-27 21:40:44
MaintainerMichael Krabbe Borregaard <mkborregaard@snm.ku.dk>
LicenseGPL-3
Version1.1.6

View on CRAN

Functions

add_shape Man page
add_sitestat Man page
add_species_stat Man page
assemblage Man page
basal_node Man page
coords Man page
coquettes Man page
Descendants Man page
distrib_data Man page
GND Man page
gridData Man page
identify.distrib_data Man page
MostRecentAncestor Man page
Node_analysis Man page
nodenumbers Man page
Node_occupancy Man page
nodes Man page
Nodesig Man page
Node_sites Man page
Node_size Man page
Node_species Man page
nodiv Man page
nodiv_data Man page
nodiv-package Man page
nodiv_result Man page
Nsites Man page
Nspecies Man page
occupancy Man page
occurrences Man page
Parent Man page
phyplot Man page
plot.distrib_data Man page
plot_grid Man page
plot_node Man page
plot_nodes_phylo Man page
plot.nodiv_data Man page
plot.nodiv_result Man page
plot_points Man page
plot_richness Man page
plot_sitestat Man page
plotSOS Man page
plot_species Man page
print.distrib_data Man page
print.nodiv_data Man page
print.nodiv_result Man page
print.summary_nodiv_result Man page
read.tree Man page
richness Man page
Sister Man page
sites Man page
sitestat Man page
SOS Man page
species Man page
species_stat Man page
subsample Man page
subsample.distrib_data Man page
subsample.nodiv_data Man page
subsample.nodiv_result Man page
summary.distrib_data Man page
summary.nodiv_data Man page
summary.nodiv_result Man page
two_color_map Man page
update_object Man page

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

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