NRI.cm                  Calculate net relatedness index (NRI) under
                        multiple metacommunities
NRI.p                   Calculate net relatedness index (NRI) by
                        parallel computing.
NTI.cm                  Calculate nearest taxon index (NTI) under
                        multiple metacommunities
NTI.p                   Calculate nearest taxon index (NTI) with
                        parallel computing
RC.bin.bigc             Calculate modified Roup-Crick index based on
                        Bray-Curtis similarity for each phylogenetic
                        bin
RC.bin.cm               Calculate modified Roup-Crick index based on
                        Bray-Curtis similarity for each phylogenetic
                        bin under multiple metacommunities
RC.cm                   Modified Raup-Crick index based on Bray-Curtis
                        similarity under multiple metacommunities
RC.pc                   Modified Raup-Crick index based on Bray-Curtis
                        similarity
bNRI.bin.big            Calculate beta net relatedness index (betaNRI)
                        for each phylogenetic bin
bNRI.bin.cm             Calculate beta net relatedness index (betaNRI)
                        for each phylogenetic bin under multiple
                        metacommunities
bNRI.cm                 Calculate beta net relatedness index with
                        parallel computing under multiple
                        metacommunities
bNRIn.p                 Calculate beta net relatedness index with
                        parallel computing
bNTI.big                Beta nearest taxon index (betaNTI) from big
                        data
bNTI.big.cm             Beta nearest taxon index (betaNTI) from big
                        data and under multiple metacommunities
bNTI.bin.big            Calculate beta nearest taxon index (betaNTI)
                        for each phylogenetic bin
bNTI.bin.cm             Calculate beta nearest taxon index (betaNTI)
                        for each phylogenetic bin under multiple
                        metacommunities
bNTI.cm                 Calculate beta nearest taxon index (betaNTI)
                        with parallel computing under multiple
                        metacommunities
bNTIn.p                 Calculate beta nearest taxon index (betaNTI)
                        with parallel computing
bmntd                   beta mean nearest taxon distance (betaMNTD)
bmntd.big               beta mean nearest taxon distance (betaMNTD)
                        from big data
bmpd                    Beta mean pairwise distance (betaMPD)
change.sigindex         Change significance index option in iCAMP
                        analysis
cohend                  Cohen's d effect size
dist.3col               Transform distance matrix to 3-column matrix
dist.bin.3col           Convert a list of dist (or matrixes) to a
                        matrix
dniche                  Calculate niche difference between species
example.data            A simple example dataset for test
iCAMP-package           Infer Community Assembly Mechanisms by
                        Phylogenetic-bin-based null model analysis
icamp.big               Infer community assembly mechanism by
                        phylogenetic-bin-based null model analysis
icamp.bins              Summarize iCAMP result in each bin
icamp.boot              Bootstrapping analysis of icamp results
icamp.cate              Summarize iCAMP result for different categories
                        of taxa
icamp.cm                Infer community assembly mechanism by
                        phylogenetic-bin-based null model analysis
                        under multiple metacommunities
icamp.cm2               Phylogenetic-bin-based null model analysis
                        under different metacommunity settings for
                        phylogenetic and taxonomic null models
icamp.out               Example output of function icamp.big
match.2col              Check the consistency of the first two columns
                        of different matrixes
match.name              Check and ensure the consistency of IDs in
                        different objects.
maxbigm                 Find maximum value in a big matrix
midpoint.root.big       Midpoint root a large phylogeny
mntdn                   Mean nearest taxon distance (MNTD)
mpdn                    Mean pairwise distance (MPD)
null.norm               Normality test for null values
pdist.big               Pairwise phylogenetic distance matrix from big
                        tree
pdist.p                 Pairwise phylogenetic distance matrix from
                        small tree
ps.bin                  Test within-bin phylogenetic signal
qp.bin.js               Calculate relative importance of community
                        assembly processes
qpen                    Quantifying assembly processes based on
                        entire-community null model analysis
qpen.cm                 Quantifying assembly processes based on
                        entire-community null model analysis under
                        multiple metacommunities
qpen.test               Summary and comparison of QPEN results based on
                        bootstrapping
snm                     Estimation of neutral taxa percentae and
                        dispersal rate
taxa.binphy.big         Phylogenetic binning based on phylogenetic tree
tree.droot              Distance from root to tip(s) and node(s) on
                        phylogenetic tree
tree.path               List nodes and edge lengthes from root to each
                        tip and/or node
