.onAttach               .onAttach start message
.onLoad                 .onLoad getOption package settings
EV.Nii                  Expected Values of the Self Entries in a
                        Species Correspondence Contingency Table (SCCT)
EV.Tcomb                Expected Value for Cuzick & Edwards T_{comb}
                        Test Statistic
EV.Tkinv                Expected Value of Cuzick and Edwards T_k^{inv}
                        Test statistic
EV.nnct                 Expected Values of the Cell Counts in NNCT
EV.rct                  Expected Values of the Cell Counts in RCT
EV.tct                  Expected Values of the Types I-IV cell-specific
                        tests
EV.tctI                 Expected Values of the Type I cell-specific
                        tests
NN                      Finding the index of the NN of a given point
NNdist                  Distances between subjects and their NNs
NNdist2cl               Distances between subjects from class i and
                        their NNs from class j
NNsub                   Finding the index of the NN of a given point
                        among a subset of points
Ninv                    Vector of Shared NNs and Number of Reflexive
                        NNs
Nt.def                  N_t Value (found with the definition formula)
Ntkl                    N_{tkl} Value
QRval                   Number of Shared and Reflexive NNs
Qsym.ct                 Q-symmetry Contingency Table (QCT)
Qsym.test               Pielou's Second Type of NN Symmetry Test with
                        Chi-square Approximation
SkewTk                  Skewness of Cuzick and Edwards T_k Test
                        statistic
Tcomb                   Cuzick & Edwards Tcomb Test Statistic
Tval                    T value in NN structure
Wmat                    The incidence matrix 'W' for the NN digraph
Xsq.ceTk                Chi-square Approximation to Cuzick and Edwards
                        T_k Test statistic
Xsq.nnsym               Overall NN Symmetry Test with Chi-square
                        Approximation
ZTcomb                  Z-test for Cuzick and Edwards T_{comb}
                        statistic
ZTrun                   Z-test for Cuzick and Edwards T_{run} statistic
ZceTk                   Z-test for Cuzick and Edwards T_k statistic
Znnsym                  NN Symmetry Test with Normal Approximation
Znnsym2cl               NN Symmetry Test with Normal Approximation for
                        Two Classes
aij.theta               Closeness or Proximity Matrix for Tango's
                        Spatial Clustering Tests
asycovTkTl              Asymptotic Covariance between T_k and T_l
                        Values
asyvarTk                Asymptotic Variance of Cuzick and Edwards T_k
                        Test statistic
bvnorm.pdf              pdf of the Bivariate Normal Distribution
ceTk                    Cuzick and Edwards T_k Test statistic
ceTkinv                 Cuzick and Edwards T_k^{inv} Test statistic
ceTrun                  Cuzick and Edwards T_{run} Test statistic
cellsTij                Entries for the Types I-IV cell-specific tests
cov.nnct                Covariance Matrix of the Cell Counts in an NNCT
cov.nnsym               Covariance Matrix of the Differences of the
                        Off-Diagonal Cell Counts in an NNCT
cov.seg.coeff           Covariance Matrix of Segregation Coefficients
                        in a Multi-class Case
cov.tct                 Covariance Matrix of the Entries of the Type
                        I-IV TCTs
covNrow2col             Conversion of the Covariance Matrix of the
                        Row-wise Vectorized Cell Counts to Column-wise
                        Vectorized Cell Counts in an NNCT
covTcomb                Covariance matrix for T_k values in 'Tcomb'
covTkTl                 Finite Sample Covariance between T_k and T_l
                        Values
dist.std.data           Interpoint Distance Matrix for Standardized
                        Data
dist2full               Converts a lower triangular distance matrix to
                        a full distance matrix
euc.dist                The Euclidean distance between two vectors,
                        matrices, or data frames
exact.nnct              Exact version of Pearson's chi-square test on
                        NNCTs
exact.pval1s            p-value correction to the one-sided version of
                        exact NNCT test
exact.pval2s            p-value correction to the two-sided version of
                        exact NNCT test
funs.auxcovtct          Auxiliary Functions for Computing Covariances
                        Between Cell Counts in the TCT
funs.base.class.spec    Base Class-specific Chi-square Tests based on
                        NNCTs
funs.cell.spec.ss       Pielou's Cell-specific Segregation Test with
                        Normal Approximation (for Sparse Sampling)
funs.class.spec         Class-specific Chi-square Tests based on NNCTs
funs.covNii             Covariance Matrix of the Self Entries in a
                        Species Correspondence Contingency Table (SCCT)
funs.covtct             Functions for Covariances of the Entries of the
                        Types I, III and IV TCTs
funs.kNNdist            Functions for the k^{th} and 'k' NN distances
funs.kNNdist2cl         Functions for the k^{th} and 'k' NN distances
funs.overall.nnct       Dixon's Overall Test of Segregation for NNCT
funs.overall.seg        Overall Segregation Tests for NNCTs
funs.overall.tct        Types I-IV Overall Tests of Segregation for
                        NNCT
funs.pijPij             The functions for probability of selecting a
                        number of points from respective classes
funs.scct               Species Correspondence Contingency Table (SCCT)
funs.seg.coeff          Pielou's Segregation Coefficients for NNCTs
funs.varNii             Variances of the Self Entries in a Species
                        Correspondence Contingency Table (SCCT)
funs.vartct             Functions for Variances of Cell Counts in the
                        Types I, III and IV TCTs
funsAijmat              Aij matrices for computation of Moments of
                        Cuzick and Edwards T_k Test statistic
funsC_MI_II             Correction Matrices for the Covariance Matrix
                        of NNCT entries
funsExpTk               Expected Value for Cuzick and Edwards T_k Test
                        statistic
funsExpTrun             Expected Value for Cuzick and Edwards T_{run}
                        Test statistic
funsNNclass.spec        NN Class-specific Chi-square Tests based on
                        NNCTs
funsN_I_II              Correction Matrices for the NNCT entries
funsOnevsRest           Functions for one versus rest type labeling
funsPseg.ss             Pielou's Overall Test of Segregation for NNCT
                        (for Sparse Sampling)
funsQandR               Functions for the number of shared NNs, shared
                        NN vector, and the number of reflexive NNs
funsRowColSums          Functions for row and column sums of a matrix
funsVarTk               Variance of Cuzick and Edwards T_k Test
                        statistic
funsVarTrun             Variance of Cuzick and Edwards T_{run} Test
                        statistic
funsW345values          W_k values for Tango's T test statistic
funsXsq.nnref           Reflexivity Test with Chi-square Approximation
funsXsq.nnsym.dx        Dixon's NN Symmetry Test with Chi-square
                        Approximation for multiple classes
funsXsq.nnsym.ss        Pielou's First Type of NN Symmetry Test with
                        Chi-square Approximation for multiple classes
                        (for Sparse Sampling)
funsXsq.seg.coeff       Chi-square Test for Segregation Coefficients
funsXsq.spec.cor        Overall Species Correspondence Test with
                        Chi-square Approximation
funsZTkinv              Z-Test for Cuzick and Edwards T_k^{inv}
                        statistic
funsZcell.nnct          Dixon's Cell-specific Z Tests of Segregation
                        for NNCT
funsZcell.nnct.pval     p-values for Cell-specific Z Test Statistics
                        for NNCT
funsZcell.spec          Cell-specific Z Tests of Segregation for NNCTs
funsZcell.tct           Types I-IV Cell-specific Z Tests of Segregation
                        based on NNCTs
funsZdir.nnct           Directional Segregation Test for Two Classes
                        with Normal Approximation
funsZdir.nnct.ss        Directional Segregation Test for Two Classes
                        with Normal Approximation (for Sparse Sampling)
funsZmixed.nonref       Mixed-Non-Reflexivity Test with Normal
                        Approximation
funsZnnref              Z Tests for NN Reflexivity
funsZnnself             Self-Reflexivity Tests with Normal
                        Approximation
funsZnnself.sum         Cumulative Species Correspondence Test with
                        Normal Approximation
funsZnnsym.dx           Dixon's Pairwise NN Symmetry Test with Normal
                        Approximation
funsZnnsym.ss           Pielou's Pairwise NN Symmetry Test with Normal
                        Approximation (for Sparse Sampling)
funsZnnsym2cl.dx        Dixon's NN Symmetry Test with Normal
                        Approximation for Two Classes
funsZnnsym2cl.ss        Pielou's First Type of NN Symmetry Test with
                        Normal Approximation for Two Classes (for
                        Sparse Sampling)
funsZseg.coeff          Z Tests for Segregation Coefficients
funsZsegind             Z Tests for Segregation Indices
funsZself.ref           Self-Reflexivity Test with Normal Approximation
ind.nnsym               Index Matrix for Computing the Covariance of
                        Dixon's Overall NN Symmetry Test
ind.seg.coeff           Index Matrix for Computing the Covariance of
                        Segregation Coefficients
ipd.mat                 Interpoint Distance Matrix
ipd.mat.euc             Euclidean Interpoint Distance Matrix
kNN                     Finding the indices of the 'k' NNs of a given
                        point
mat2vec                 Conversion of a Matrix to a Vector
matrix.sqrt             Square root of a matrix
nnct                    Nearest Neighbor Contingency Table (NNCT)
nnct.boot.dis           Bootstrap Nearest Neighbor Contingency Table
                        (NNCT)
nnct.sub                Nearest Neighbor Contingency Table (NNCT) with
                        (only) base points restricted to a subsample
nnspat-package          nnspat: A package for NN Methods and Their Use
                        in Testing Spatial Patterns
pairwise.lab            Keeping the pair of the specified labels in the
                        data
pick.min.max            Smallest and Largest Distances in a Distance
                        Matrix
pk                      Probability of 'k' items selected from the
                        class with size n_1
plot.Clusters           Plot a 'Clusters' object
plot.SpatPatterns       Plot a 'SpatPatterns' object
print.Chisqtest         Print a summary of a 'Chisqtest' object
print.Clusters          Print a 'Clusters' object
print.SpatPatterns      Print a 'SpatPatterns' object
print.cellhtest         Print a summary of a 'cellhtest' object
print.classhtest        Print a summary of a 'classhtest' object
print.refhtest          Print a summary of a 'refhtest' object
print.summary.Clusters
                        Print a summary of a 'Clusters' object
print.summary.SpatPatterns
                        Print a summary of a 'SpatPatterns' object
prob.nnct               Probability of the current nearest neighbor
                        contingency table
rassoc                  Generation of Points Associated with a Given
                        Set of Points
rassocC                 Generation of Points Associated in the Type C
                        Sense with a Given Set of Points
rassocG                 Generation of Points Associated in the Type G
                        Sense with a Given Set of Points
rassocI                 Generation of Points Associated in the Type I
                        Sense with a Given Set of Points
rassocU                 Generation of Points Associated in the Type U
                        Sense with a Given Set of Points
rct                     Reflexivity Contingency Table (RCT)
rdiag.clust             Generation of Points with Clusters along the
                        First Diagonal
rhor.clust              Generation of Points with Clusters along the
                        Horizontal Axis
rnonRL                  Non-Random Labeling of a Given Set of Points
rnonRLI                 Type I Non-Random Labeling of a Given Set of
                        Points
rnonRLII                Type II Non-Random Labeling of a Given Set of
                        Points
rnonRLIII               Type III Non-Random Labeling of a Given Set of
                        Points
rnonRLIV                Type IV Non-Random Labeling of a Given Set of
                        Points
rrot.clust              Generation of Points with Rotational Clusters
rseg                    Generation of Points under Segregation of Two
                        Classes
rself.ref               Generation of Points from Self Correspondence
                        Pattern
runif.circ              Generation of Uniform Points in a Circle
seg.ind                 Dixon's Segregation Indices for NNCTs
sharedNNmc              The Shared NN Vectors for Multiple Classes
summary.Clusters        Return a summary of a 'Clusters' object
summary.SpatPatterns    Return a summary of a 'SpatPatterns' object
swamptrees              Tree Species in a Swamp Forest
tct                     T Contingency Table (TCT)
tocher.cor              Tocher's randomized correction to the exact
                        p-value
var.nnct                Variances of Cell Counts in an NNCT
var.nnsym               Variances of Differences of Off-Diagonal
                        Entries in an NNCT
var.seg.coeff           Variances of Segregation Coefficients in a
                        Multi-class Case
var.tct                 Variances of Entries in a TCT
varPseg.coeff           Variance of Pielou's Segregation Coefficient
                        for 2 Classes
varTkinv.sim            Simulated Variance of Cuzick and Edwards
                        T_k^{inv} Test statistic
