BankingCrisesDistances
                        Banking Crises Distances
Pendigits500            Pen digits
Swissroll               Swiss roll
biplotmds.stops         S3 method for stops objects
bootmds.stops           MDS Bootstrap for stops objects
c_association           c-association calculates the c-association
                        based on the maximal information coefficient We
                        define c-association as the aggregated
                        association between any two columns in confs
c_clumpiness            c-clumpiness
c_clusteredness         c-clusteredness calculates c-clusteredness as
                        the OPTICS cordillera. The higher the more
                        clustered.
c_complexity            c-complexity Calculates the c-complexity based
                        on the minimum cell number We define
                        c-complexity as the aggregated minimum cell
                        number between any two columns in confs This is
                        one of few c-structuredness indices not between
                        0 and 1, but can be between 0 and
                        (theoretically) infinity
c_convexity             c-convexity
c_dependence            c-dependence calculates c-dependence as the
                        aggregated distance correlation of each pair if
                        nonidentical columns
c_faithfulness          c-faithfulness calculates the c-faithfulness
                        based on the index by Chen and Buja 2013
                        (M_adj) with equal input neigbourhoods
c_functionality         c-functionality calculates the c-functionality
                        based on the maximum edge value We define
                        c-functionality as the aggregated functionality
                        between any two columns of confs
c_hierarchy             c-hierarchy captures how well a
                        partition/ultrametric (obtained by hclust)
                        explains the configuration distances. Uses
                        variance explained for euclidean distances and
                        deviance explained for everything else.
c_inequality            c-inequality Calculates c-inequality (as in an
                        economic measure of inequality) as Pearsons
                        coefficient of variation of the fitted distance
                        matrix. This can help with avoiding degenerate
                        solutions.  This is one of few c-structuredness
                        indices not between 0 and 1, but 0 and
                        infinity.
c_linearity             c-linearity calculates c-linearity as the
                        aggregated multiple correlation of all columns
                        of the configuration.
c_manifoldness          c-manifoldness calculates c-manifoldness as the
                        aggregated maximal correlation coefficient
                        (i.e., Pearson correlation of the ACE
                        transformed variables) of all pairwise
                        combinations of two different columns in confs.
                        If there is an NA (happens usually when the
                        optimal transformation of any variable is a
                        constant and therefore the covariance is 0 but
                        also one of the sds in the denominator), it
                        gets skipped.
c_mine                  wrapper for getting the mine coefficients
c_nonmonotonicity       c-nonmonotonicity calculates the
                        c-nonmonotonicity based on the maximum
                        asymmetric score We define c-nonmonotonicity as
                        the aggregated nonmonotonicity between any two
                        columns in confs this is one of few
                        c-structuredness indices not between 0 and 1
c_outlying              c-outlying
c_regularity            c-regularity calculates c-regularity as 1 -
                        OPTICS cordillera for k=2. The higher the more
                        regular.
c_shepardness           c-shepardness calculates the c-shepardness as
                        the correlation between a loess smoother of the
                        transformed distances and the transformed
                        dissimilarities
c_skinniness            c-skinniness
c_sparsity              c-sparsity
c_striatedness          c-striatedness
c_stringiness           c-stringiness
coef.stops              S3 coef method for stops objects
jackmds.stops           MDS Jackknife for stops objects
knn_dist                calculate k nearest neighbours from a distance
                        matrix
ljoptim                 (Adaptive) Version of Luus-Jaakola Optimization
match_partial_ignorecase_nopunct
                        function for lookup that partially matched and
                        ignores cases and punctuation
plot.stops              S3 plot method for stops objects
print.stops             S3 print method for stops objects
print.summary.stops     S3 print method for summary.stops
residuals.stops         S3 residuals method for stops
stop_apstress           STOPS version of approximated power stress
                        models.
stop_bcmds              STOPS version of Box Cox Stress
stop_clca               STOPS version of CLCA.
stop_cldae              STOPS version of CLDA with free epsilon.
stop_cldak              STOPS version of CLDA with free k.
stop_cmdscale           STOPS version of strain
stop_elastic            STOPS versions of elastic scaling models (via
                        smacofSym)
stop_isomap1            STOPS version of isomap to optimize over
                        integer k.
stop_isomap2            STOPS version of isomap over real epsilon.
stop_lmds               STOPS version of lMDS
stop_powerelastic       STOPS version of elastic scaling with powers
                        for proximities and distances
stop_powermds           STOPS version of powermds
stop_powersammon        STOPS version of sammon with powers
stop_powerstress        STOPS version of powerstress
stop_rpowerstress       STOPS version of restricted powerstress
stop_rstress            STOPS version of rstress
stop_sammon             STOPS version of Sammon mapping
stop_sammon2            Another STOPS version of Sammon mapping models
                        (via smacofSym)
stop_smacofSphere       STOPS versions of smacofSphere models
stop_smacofSym          STOPS version of smacofSym models
stop_smddae             STOPS version of sparsified multidimensional
                        distance analysis for fixed eps and tau
stop_smddak             STOPS version of sparsified multidimensional
                        distance analysis for fixed k and tau
stop_smds               STOPS version of sparsified MDS.
stop_spmddae            STOPS version of sparsified post
                        multidimensional distance analysis for fixed
                        tau and epsilon.
stop_spmddak            STOPS version of sparsified post
                        multidimensional distance analysis for fixed
                        tau and k.
stop_spmds              STOPS version of sparsified POST-MDS for fixed
                        tau
stop_sstress            STOPS version of sstress
stoploss                Calculate the weighted multiobjective loss
                        function used in STOPS
stops                   High Level STOPS Function
summary.stops           S3 summary method for stops
tgpoptim                Bayesian Optimization by a (treed) Bayesian
                        Gaussian Process Prior (with jumps to linear
                        models) surrogate model Essentially a wrapper
                        for the functionality in tgp that has the same
                        slots as optim with defaults for STOPS models.
