R: Parallel and Memory-Efficient Ecological Diversity Metrics

# Parallel and Memory-Efficient Ecological Diversity Metrics

## Documentation for package ‘ecodive’ version 2.2.6

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

ace | Abundance-based Coverage Estimator (ACE)
aitchison | Aitchison distance
alpha_div | Alpha Diversity Wrapper Function
berger | Berger-Parker Index
beta_div | Beta Diversity Wrapper Function
bhattacharyya | Bhattacharyya distance
bray | Bray-Curtis dissimilarity
brillouin | Brillouin Index
canberra | Canberra distance
chao1 | Chao1 Richness Estimator
chebyshev | Chebyshev distance
chord | Chord distance
clark | Clark's divergence distance
divergence | Divergence
euclidean | Euclidean distance
ex_counts | Example counts matrix
ex_tree | Example phylogenetic tree
faith | Faith's Phylogenetic Diversity (PD)
fisher | Fisher's Alpha
generalized_unifrac | Generalized UniFrac (GUniFrac)
gower | Gower distance
hamming | Hamming distance
hellinger | Hellinger distance
horn | Horn-Morisita dissimilarity
inv_simpson | Inverse Simpson Index
jaccard | Jaccard distance
jensen | Jensen-Shannon distance
jsd | Jensen-Shannon divergence (JSD)
list_metrics | Find and Browse Available Metrics
lorentzian | Lorentzian distance
manhattan | Manhattan distance
margalef | Margalef's Richness Index
match_metric | Find and Browse Available Metrics
matusita | Matusita distance
mcintosh | McIntosh Index
menhinick | Menhinick's Richness Index
minkowski | Minkowski distance
morisita | Morisita dissimilarity
motyka | Motyka dissimilarity
normalized_unifrac | Normalized Weighted UniFrac
n_cpus | Number of CPU Cores
observed | Observed Features
ochiai | Otsuka-Ochiai dissimilarity
psym_chisq | Probabilistic Symmetric Chi-Squared distance
rarefy | Rarefy Observation Counts
read_tree | Read a newick formatted phylogenetic tree.
shannon | Shannon Diversity Index
simpson | Gini-Simpson Index
soergel | Soergel distance
sorensen | Dice-Sorensen dissimilarity
squared_chisq | Squared Chi-Squared distance
squared_chord | Squared Chord distance
squared_euclidean | Squared Euclidean distance
squares | Squares Richness Estimator
topsoe | Topsoe distance
unweighted_unifrac | Unweighted UniFrac
variance_adjusted_unifrac | Variance-Adjusted Weighted UniFrac
wave_hedges | Wave Hedges distance
weighted_unifrac | Weighted UniFrac