picante-package |
Picante: Phylocom Integration, Community Analyses, Null-models, Traits, and Evolution in R |
color.plot.phylo |
Color tip labels based on trait |
comm.phylo.cor |
Correlations between species co-occurrence and phylogenetic distances |
cor.table |
Table of correlations and P-values |
df2vec |
Picante utility functions |
evolve.brownian |
Trait evolution under Brownian motion |
internal2tips |
Picante utility functions |
Kcalc |
K statistic of phylogenetic signal |
matrix2sample |
Convert community data matrix to Phylocom sample |
mnnd |
Mean nearest neighbour distance |
mpd |
Mean pairwise distance |
multiPhylosignal |
Calculates phylogenetic signal for data.frame of traits |
node.age |
Picante utility functions |
pblm |
Phylogenetic Bipartite Linear Model |
pblmpredict |
Phylogenetic Bipartite Linear Model |
pd |
Calculate Faith's Phylogenetic Diversity |
phylocom |
Phylocom default data |
phylosignal |
Measure phylogenetic signal |
phylosor |
Phylogenetic index of beta-diversity PhyloSor |
phylosor.rnd |
Null PhyloSor values of phylogenetic beta-diversity |
phylostruct |
Permutations to Test for Phylogenetic Signal in Community Composition |
pic.circular |
Phylogenetic independent contrasts for circular data |
pic.variance |
Picante utility functions |
picante |
Picante: Phylocom Integration, Community Analyses, Null-models, Traits, and Evolution in R |
prune.missing |
Prune tree to match community data or trait data |
prune.sample |
Prune tree to match community data or trait data |
psc |
Phylogenetic Species Diversity Metrics |
psd |
Phylogenetic Species Diversity Metrics |
pse |
Phylogenetic Species Diversity Metrics |
psr |
Phylogenetic Species Diversity Metrics |
psv |
Phylogenetic Species Diversity Metrics |
randomizeSample |
Null models for community data matrix randomization |
readsample |
Read Phylocom sample |
sample2matrix |
Convert Phylocom sample to community data matrix |
ses.mnnd |
Standardized effect size of MNND |
ses.mpd |
Standardized effect size of mpd |
sortColumns |
Picante utility functions |
sortRows |
Picante utility functions |
specaccum.psr |
Phylogenetic Species Richness Sample-Based Rarefaction Curve |
species.dist |
Species co-occurrence distances |
sppregs |
Regressions to Separate Phylogenetic Attraction and Repulsion |
taxaShuffle |
Picante utility functions |
writesample |
Write a Phylocom community sample file |
writetraits |
Write a Phylocom traits formatted file |