Package: cops 1.11-3

Thomas Rusch

cops:Cluster Optimized Proximity Scaling

Multidimensional scaling (MDS) methods that aim at pronouncing the clustered appearance of the configuration (Rusch, Mair & Hornik, 2021, <doi:10.1080/10618600.2020.1869027>). They achieve this by transforming proximities/distances with explicit power functions and penalizing the fitting criterion with a clusteredness index, the OPTICS Cordillera (Rusch, Hornik & Mair, 2018, <doi:10.1080/10618600.2017.1349664>). There are two variants: One for finding the configuration directly (COPS-C) with given explicit power transformations and implicit ratio, interval and non-metric optimal scaling transformations (Borg & Groenen, 2005, ISBN:978-0-387-28981-6), and one for using the augmented fitting criterion to find optimal hyperparameters for the explicit transformations (P-COPS). The package contains various functions, wrappers, methods and classes for fitting, plotting and displaying a large number of different MDS models (most of the functionality in smacofx) in the COPS framework. The package further contains a function for pattern search optimization, the ``Adaptive Luus-Jaakola Algorithm'' (Rusch, Mair & Hornik, 2021,<doi:10.1080/10618600.2020.1869027>) and a functions to calculate the phi-distances for count data or histograms.

Authors:Thomas Rusch [aut, cre], Patrick Mair [aut], Kurt Hornik [ctb]

cops_1.11-3.tar.gz
cops_1.11-3.tar.gz(r-4.5-noble)cops_1.11-3.tar.gz(r-4.4-noble)
cops_1.11-3.tgz(r-4.4-emscripten)cops_1.11-3.tgz(r-4.3-emscripten)
cops.pdf |cops.html✨
cops/json (API)
NEWS

# Installcops in R:

install.packages('cops',repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://r-forge.r-project.org/projects/stops

Datasets:

BankingCrisesDistances - Banking Crises Distances
matchphi - Distances of MATCH-ADTC modules

7 exports 0.00 score 180 dependencies 279 downloads

Last updated 8 days agofrom:4f3fc384c3

Exports:cops copsc copstressMin copStressMin ljoptim pcops phidistance

Dependencies:abind analogue askpass backports base64enc bit bit64 boot brglm broom bslib cachem candisc car carData checkmate class cli clipr cluster cmaes codetools colorspace commonmark cordillera cowplot cpp11 crayon crosstalk crs cubature curl data.table dbscan deldir Deriv dfoptim digest doBy doParallel dplyr e1071 ellipse evaluate fansi farver fastmap fontawesome forcats foreach foreign Formula fs gdata GeneralizedUmatrix generics GenSA geometry ggplot2 glmnet glue gridExtra gtable gtools haven heplots highr Hmisc hms htmlTable htmltools htmlwidgets httpuv httr isoband iterators jomo jquerylib jsonlite knitr labeling later lattice lazyeval lifecycle linprog lme4 lpSolve magic magrittr MASS Matrix MatrixModels memoise mgcv mice microbenchmark mime minqa mitml modelr munsell NlcOptim nlme nloptr nnet nnls np numDeriv openssl ordinal pan pbkrtest permute pillar pkgconfig plotly plotrix polynom prettyunits princurve profileModel progress ProjectionBasedClustering promises proxy pso purrr quadprog quantreg R6 rappdirs RColorBrewer Rcpp RcppArmadillo RcppEigen RcppParallel RcppProgress readr rgenoud rgl rlang rmarkdown rpart Rsolnp rstudioapi sass scales shape shiny shinyjs shinythemes smacof smacofx sourcetools SparseM stringi stringr subplex survival sys tibble tidyr tidyselect tinytex truncnorm tzdb ucminf utf8 vctrs vegan viridis viridisLite vroom weights withr wordcloud xfun xtable yaml

A Tutorial on Cluster Optimized Proximity Scaling (COPS)

Rendered fromcops.html.asisusingR.rsp::asison Jun 28 2024.

Last update: 2024-06-28
Started: 2021-03-23

Help page	Topics
Banking Crises Distances	BankingCrisesDistances
MDS Bootstrap for pcops objects	bootmds.pcops
PCOPS version of approximated power stress model.	cop_apstress
PCOPS version of strain	cop_cmdscale
PCOPS versions of elastic scaling models (via smacofSym)	cop_elastic
PCOPS version of elastic scaling with powers	cop_powerelastic
PCOPS version of powermds	cop_powermds
PCOPS version of sammon with powers	cop_powersammon
COPS version of powerstress	cop_powerstress
PCOPS version of restricted powerstress.	cop_rpowerstress
PCOPS version of rstress	cop_rstress
PCOPS version of Sammon mapping from MASS	cop_sammon
Another COPS versions of Sammon mapping models (via smacofSym)	cop_sammon2
PCOPS versions of smacofSphere models	cop_smacofSphere
PCOPS versions of smacofSym models	cop_smacofSym
PCOPS version of sstress	cop_sstress
High Level COPS Function	cops
Calculates copstress for given MDS object	copstress
Fitting a COPS-C Model (COPS Variant 1).	copsc copStressMin copstressMin
Double centering of a matrix	doubleCenter
Explicit Normalization Normalizes distances	enorm
MDS Jackknife for pcops objects	jackmds.pcops
(Adaptive) Version of Luus-Jakola Optimization	ljoptim
Distances of MATCH-ADTC modules	matchphi
Auxfunction1	mkBmat
Take matrix to a power	mkPower
Profile COPS Function (aka COPS Variant 2)	pcops
Squared p-distances	pdist
Calculating the pairwise phi distance matrix between n vectors	phidistance
S3 plot method for cops objects	plot.copsc
S3 plot method for p-cops objects	plot.pcops
procruster: a procrustes function	procruster
Adjusts a configuration	scale_adjust
Secular Equation	secularEq
Calculating stress per point	spp
Squared distances	sqdist

Package: cops 1.11-3

cops:Cluster Optimized Proximity Scaling

A Tutorial on Cluster Optimized Proximity Scaling (COPS)

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