NEWS

---

vcdExtra 0.9.6

• Fix @aliases for roxygen 8.0.0
• Make some color_table() examples visible in documentation

vcdExtra 0.9.5

This is a major release of the package, completing work on a sizable collection of tidy tools for manipulating categorical data in various forms

• Added a general collapse_levels() function that can collapse levels of variables belonging to data sets of any form. [GK]
• Added as_matrix() to the set of as_*() conversion functions. [GK]
• Added prop arguments to applicable as_*() conversion functions to easily convert counts to proportions (either relative to the grand total count or to specified margins). [GK]
• Added vignette on tidy operations (convert, collapsing) [GK]
• Gavin Klorfine (@gklorfine) becomes a package author

vcdExtra 0.9.4

• suppressWarnings() from ca:mcja() in mcaplot() examples

vcdExtra 0.9.3 (2026-03-18)

This bundle brings quite a few enhancements, improvements in documentation and bug fixes

• Added tidy conversion functions: as_array(), as_caseform(), as_freqform, as_table() PR #22 [Thx: Gavin Klorfine]
• Fixed bug in mcaplot() coming from `ca::cacoords(): "non-conformable arguments"
• Expanded documentation of color_table() to give better advice on how to use this in Rmd or qmd documents.
• Added: knitr_include() as a general solution to using gt, DT, plotly, ... outputs in non-HTML documents.
• Added pairs_diagonal_mosaic(), overriding the {vcd} version to give more flexibility in printing the cell values in the diagonal cells. PR #24 [Thx: Gavin Klorfine]

vcdExtra 0.9.2

• Added a label = c("name", "formula") argument to LRstats() to provide for labeling models by their model formulas in the output using get_models().
• Handle list (...) of models with formula labels more flexibly in LRstats()
• Document get_model() and get_models() together
• Added `assoc_graph() and a plot method for association graphs of loglinear models.
• Added edge weights to assoc_graph() representing partial G^2 or Cramer's V

vcdExtra 0.9.1 (2026-02-09)

This is a major release of the package, adding facility to show observations in mosaic plots as jittered points and a new visualization method based on background shading of frequency tables.

• Added labeling_points() for mosaic displays to show observed or expected frequencies as random points in the tiles
• Changed defaults for clip and margin in labeling_points() to be more sensible [Thx: Achim Zeileis]
• Added color_table() to display frequency tables with color shaded backgrounds to show patterns
• Refactored color_table() as S3 methods, adding support for frequency data frames. Added file output, other formatting options
• Print message for color_table() giving the model fit statistics.
• Now provide color_table(values =) to display either the frequencies (default) or residuals in the table.
• Add legend = "note" to include a table note regarding what is shown.
• Added Reinis data as an example of a higher-way table, 2^6
• Make the default label for seq_loglm() models reflect the model type
• Added get_models() to extract model formulas from loglmlist and glmlist objects
• Added get_model() to do the same for loglm() and glm() objects
• Fixed bug in get_models() where the abbrev argument caused an error

vcdExtra 0.9.0 (2026-01-21)

This is a major release of the package, adding structure to dataset examples and introducing an new extension Woolf's test for homogeneity of odds ratios.

• Begin to categorize the datasets in the package with @concept tags
• Begin to flesh out more general conception of CDA
• datasets(): added ndim arg; package="vcdExtra" default
• Added a tidyCat hex logo
• Generalized vcd::woolf_test() to handle strata better, with special handling for 2 x 2 x R x C case.
• Completed extension of vcd::woolf_test() to fully handle R x C strata, with tests for rows/cols/residuals
• Added GH actions R-CMD-check & pkgdown
• Now depends R (>= 4.1.0) due to use of native pipe |>
• Fixed some broken URLs in R/data.R

vcdExtra 0.8.7 (2025-12-11)

This is a major release of the package, fixing bugs and revising documentation

o Added tests for CMHtest() PR #13 [Thx: Daniel Sabanes Bove] o Automatically omit strata with a single observation in CMHtest() because they do not contribute to the test statistics o Use the generalized Moore-Penrose inverse from MASS in CMHtest() such that it can work when the variance matrix is singular. o Converted the package to use roxygen documentation via {rd2roxygen}. UGH! o Added CrabSatellites data from {countreg} b/c that's still not available on CRAN o Moved grid from Depends: to Imports: o Now use markdown in package documentation for easier maintenance, via {roxygen2md}

vcdExtra 0.8-6 (2025-07-24)

This is a minor release to satisfy the CRAN gods who like all crossref links to be correct.

o Fixed CRAN nits re crossrefs o Update issues link o Update README o Fixed Winbuilder notes re: Rd links to data sources

vcdExtra 0.8-5 (2023-08-22)

• Fix CRAN nit re vcdExtra-package.Rd
• Fix moved URL - http: -> https:
• Fix xrefs in vignettes
• More spellcheck
• Fixed one more NOTE re: AirCrash.Rd for a URL

vcdExtra 0.8-4 (2023-04-16)

• Imports: tidyr must depend on (>= 1.3.0) for one use in a vignette.
• Enhanced the vignette, "Creating and manipulating frequency tables", vignettes/creating.Rmd
• Created a new vignette, "Mobility tables", with extensive examples of models and graphs for square mobility tables.

vcdExtra 0.8-3 (2023-03-04)

• All datasets now classified with \concept{} tags by method of analysis. These can be found using help.search(pattern, field="concept")
• Added a vignette, datasets.Rmd showing all datasets classified by method tags. Links only work in the pkgdown site.
• Added Asbestos data

vcdExtra 0.8-2 (2023-01-29)

This is a major enhancement release of the vcdExtra package, focusing on documentation and examples.

• added HouseTasks data set, illustrating permutation of row / col variables
• package now depends on R (>= 3.5.0) per CRAN nit
• add Suggests: seriation to illustrate CA re-ordering of rows/cols based on correspondence analysis
• all .Rd files reformatted and many examples extended.
• the vignette mosaic.Rmd on mosaic displays has been extensively revised with examples for square tables and permutation of row / column variables.
• begin to classify datasets with \concept{} tags
• Added a new demo-housing.Rmd vignette, using content from demo/housing.R.

vcdExtra 0.8-1

• rename vignettes to be in order

vcdExtra 0.8-0 (2022-04-21)

• Fixed warning from expand.dft() re type.convert
• Old .Rnw vignettes converted to .Rmd
• Fixed two problems detected in the initial submission.

vcdExtra 0.7-6 (2022-02-14)

• Fix some issues with CMHtest() types argument #PR11 [Thx: ShuguangSun, Matt Kumar]
• Fix some Winbuilder URL nits; extensive spell checking

vcdExtra 0.7-5 (2021-01-25)

• Fix problem re use of rgl in mosaic3d() examples

vcdExtra 0.7-4

• Fix datasets() to work with packages not using LazyData #PR7 [Thx: Duncan Murdoch]
• Bump package Version

vcdExtra 0.7-3

• fix Version number for gnm in DESCRIPTION
• fix expand.dft and expand.table to work with tibbles [Thx: Duncan Murdoch]
• vcdExtra gets a hex sticker

vcdExtra 0.7-1 (2017-09-29)

• Fixed buglet in expand.dft() when table is 1-dim [Thx: Long Qu]
• Added zero.test(), a simple score test for zero inflation
• Development has moved to https://github.com/friendly/vcdExtra

vcdExtra 0.7-0 (2016-02-25)

• Added Glass data
• introduce links and references to DDAR
• added mcaplot() to plot MCA solutions in DDAR style
• added update.xtabs() method
• updated vignette to refer to DDAR

vcdExtra 0.6-12 (2015-12-23)

• Added Burt data
• Fixed examples/vignette for ggplot_2.0.0

vcdExtra 0.6-11 (2015-09-17)

• bump pkg Version for CRAN

vcdExtra 0.6-10

• Added HospVisits data

vcdExtra 0.6-9 (2015-07-11)

• Added Mice data
• Removed uses of summarise() and Summarise() from demos and examples, in preparation for deprecating them.
• summarise() is now deprecated
• Now use importsFrom() for all functions from recommended packages

vcdExtra 0.6-8 (2015-04-16)

• Fixed Title: and Description: for CRAN

vcdExtra 0.6-7

• Removed loddsratio (now in vcd) (rev 252)
• Removed print.Kappa (now in vcd) (rev 253)
• Fixed bug in CMHtest(): rmeans and cmeans labels were reversed (rev 254)
• Fixed error in Fungicide.Rd, now that we require vcd_1.3-3 (rev 254)
• Added WorkerSat data - 2 x 2 x 2
• Added AirCrash data

vcdExtra 0.6-6

• Minor doc changes

vcdExtra 0.6-5 (2015-01-03)

• Added Cormorants data (fixed to latest)
• Added LRstats(), to replace Summarise. Older summarise() and Summarise() will eventually be deprecated.
• Now Suggests: AER for NMES1988 data
• collapse.table() now works with array objects

vcdExtra 0.6-3 (2014-11-01)

• Fixed bug in logLik.loglm when the data contain zero frequencies (rev 228)
• Made Summarise generic, adding a method for "glmlist" objects (rev 230)
• Added a coef() method for "glmlist" objects (thx: John Fox)
• Added a Summarise.loglmlist method (rev 232)
• Replaced all documentation uses of summarise() with Summarise() (rev 233)
• Added cutfac(), a convenience wrapper for cut() (rev 234)
• Now use rgl:: in all mosaic3d functions

vcdExtra 0.6-2

• added Summarise, to replace summarise
• Added HairEyePlace data - 4 x 5 x 2, Caithness and Aberdeen hair/eye color (rev 223)
• Added PhdPubs data from Long (1997) - publications by PhD candidates
• Allow Summarise to work with models w/o a deviance() function
• Fixed bug in Summarise wrt degrees of freedom

vcdExtra 0.6-1 (2014-06-10)

• Added ICU data
• Added Toxaemia data - multivariate response contingency table (rev 209)
• Added Vietnam data - 2 x 5 x 4 frequency table (rev 210)
• Added logLik.loglm to allow use of AIC() and BIC() for loglm models (rev 212)
• Fixed loddsratio.Rd to work with revised vcd::CoalMiners data (rev 212)
• Added blogits for bivariate binary response data
• Added Vote1980 data (rev 214)

vcdExtra 0.6-0 (2014-03-08)

• Removed Authors: in DESCRIPTION, bumped Version

vcdExtra 0.5-12

• Added ShakeWords data set- word frequency counts from Shakespeare (rev 188)
• Added Geissler data-- all family sizes for Saxony sex composition data (rev 190)
• Added logseries functions for the logarithmic series distribution (rev 191)
• Added Depends data -- dependencies of r packages (rev 192)
• Fixed buglet in seq_loglm() not respecting arrays
• Added seq_mosaic() (rev 194)
• Added CyclingDeaths data (rev 196)
• mosaic3d() gets an interpolate= option to control shading levels (rev 197)
• Fixed bug in seq_mosaic, thx to David Meyer (rev 200)
• Fixed bug in seq_loglm() when marginals != 1:nf

vcdExtra 0.5-11 (2013-09-16)

• Added mosaic.glmlist to plot mosaics (or other strucplots) for some or all models in a glmlist (rev 169)
• Added loglin-utilities.R, containing a suite of functions to provide a more conceptual way to specify loglinear models by type ('joint', 'conditional', 'mutual', 'markov', 'saturated') (rev 171)
• Added mosaic.loglmlist, similar to mosaic.glmlist for models fit using MASS::loglm (rev 173)
• Both mosaic.glmlist and mosaic.glmlist get an explicit panel=argument; both get some more sensible default default arguments (rev 175)
• Added seq_loglm to fit sequential loglm models to marginal subtables, giving a loglmlist result (rev 176)
• Added Accident data (rev 178); fleshed out Accident examples (rev 180)
• Fixed use of ::: for R 3.0.1 (rev 179)
• Fixed various problems related to use of MASS:loglm (rev 181-183)
• Added Titanicp to datasets (rev 185)

vcdExtra 0.5-8

• Revised vcd-tutorial showing some examples of plyr; added a section on RC models
• Added Donner data with example of ggplot2 plot for a binomial glm()
• Added vcd-tutorial section using ggplot2 for Donner data
• Enhanced datasets() to provide a maxTitle argument (rev 153)
• Added doubledecker plots to Dyke.Rd (rev 156)
• Added Draft1970table and Draft1970 data sets (rev 158)
• Added example of doubledecker plots to vcd-tutorial vignette (rev 164)

vcdExtra 0.5-7 (2013-03-05)

• Completed CMHtest methods, adding overall tests across strata in a general way
• CMHtest now gets an S3 generic with a formula interface
• print Kappa gets digits= and CI= arguments

vcdExtra 0.5-6 (2013-02-28)

• Added Hosmer Lemeshow and HLtest methods, including plotting via vcd::rootogram()
• Added CMHtest for general Cochran-Mantel-Haenszel tests
• Revised vcd-tutorial vignette, adding a section on CMH tests; removed dependence on Z.cls

vcdExtra 0.5-3 (2012-05-08)

• Added Mammograms data (4x4, ordered factors, agreement)
• Extended mosaic.glm examples
• Added Alligator data (4x2x2x5, in frequency form)
• Added DaytonSurvey data (5-way, 2x2x2x2x2 in frequency form)
• Extended vcd-tutorial vignette with a section on collapsing over factors
• Removed aperm.* now that aperm.table is in base R

vcdExtra 0.5-2 (2011-03-24)

• Added loddsratio and related methods for log odds ratios, generalizing vcd::oddsratio from 2 x 2 (x strata) tables to R x C (x strata) tables
• Added as.matrix.loddsratio, as.array.loddsratio methods
• Added some simple plot examples to example(loddsratio), anticipating a plot method
• Added data(Fungicide), a 2 x 2 x 2 x 2 table
• Renamed summarize() and related methods to summarise() to avoid conflict with plyr.
• Addition to vcd-tutorial vignette on use of aperm() with table objects
• Updated demo(yamaguchi-xie) to correct row/col nomenclature and add plot of BIC
• Added aperm() S3 generic to handle table objects
• Moved tv.dat to inst/doc/extdata to avoid warnings in R 2.12+

vcdExtra 0.5-1 (2010-11-29)

• Added Yamaguchi87 data (5x5x3 three-way mobility table in frequency form)
• Added demo(yamaguchi-xie) illustrating fitting and visualization of the models of homogeneous and log multiplicative layer effects fit in Xie (1992, Table 1)
• Added BIC to summarize() and friends
• Added Hauser79 data (two-way mobility table), plus some examples from Powers and Xie (2008)
• Added Crossings() to construct interactions for Goodman 1972 crossings model.
• Added datasets() to list datasets in packages
• Extended description and examples of Kway()
• Added meanResiduals() and extended mosaic.glm() (Heather Turner)
• summarize() gets a sortby argument for glmlist and loglmlist objects

vcdExtra 0.5-0 (2010-04-16)

• Fleshed out mosaic3d, allowing display of observed or expected, internally calculated or externally supplied residuals, specifying the initial 3D shape, etc. This completes the 'top-level' work on mosaic3d(), borrowing code from vcd::strucplot.
• Added initial handling for zero cells in the table to mosaic3d().
• Added center3d() for finding the mean coordinates of shape3d objects.
• Added demo(mosaic-hec) comparing 2D and 3D mosaics for HairEyeColor data
• Gave mosaic3d a label_edge argument, allowing labels for dimensions at minima or maxima
• Made mosaic3d object oriented, giving it a loglm method
• Added Kway(), fitting all 0-way, 1-way, 2-way, ... k-way models in a glm

vcdExtra 0.4-3

• Added demo(mosaic3d-demo), a proof-of-concept for doing 3D mosaic displays
• Added mosaic3d(), an initial basic Version.
• Factored out split3d() and gave it S3 methods

vcdExtra 0.4-2 (2010-03-18)

• Revised vignette("vcd-tutorial"): added some hints for mosaic(), corrected stuff regarding prior limitations of mosaic.glm()
• Added demo(Wong3-1): three-way table, with models of conditional association
• Added Suggest: effects for effects plots of glm(), multinom() and polr() models
• Added demo(housing): visualize models fit in example(housing, package="MASS") using mosaic() and effect plots.
• Updated demo(Wong2-3): added model comparison plots, glmlist processing
• Added Suggest: VGAM
• Extended package description in vcdExtra-package.Rd
• Added glmlist() to facilitate processing, extraction, plotting, etc. of a collection of glm() models
• Added loglmlist(), for collections of loglm() objects
• Added summarize methods for glm, glmlist, loglm and loglmlist objects

vcdExtra 0.4-1 (2010-03-07)

• Added example(Caesar), illustrating structural zeros
• Re-named Heckman variables to e1971, ..., e1968 (errors from loglm); began example(Heckman)
• Added example(Detergent), example(Dyke)
• Fixed bug with mosaic.glm when data in global environment (Heather Turner)
• Added sieve.glm and assoc.glm methods (MF)
• Added modFit.glm and modFit.loglm
• Added demo(Wong2-3)

vcdExtra 0.4-0 (2010-02-28)

• Added new datasets: data/{Abortion, Bartlett, Caesar, Cancer, Detergent, Dyke, Gilby, Heart, Heckman, Hoyt, Mobility} from mosdata.sas via md2r.sas converter.
• Fixed small documentation warnings
• Switched inst/CHANGES to NEWS

vcdExtra 0.3-6

• Added Depends: gnm
• Added demo/{mental-glm, ucb-glm, vision-quasi}
• Added demo/{occStatus,yaish-unidiff}
• Initial release to CRAN

vcdExtra 0.3-5

• mosaic.glm now uses object$data if available

vcdExtra 0.3-4

• Fixed bugs in mosaic.glm, mosaic.gnm in models with terms like Diag(dest, origin) that get included in x$xlevels

vcdExtra 0.3-3

• Fixed bugs in mosaic.gnm
• Fixed print.GKgamma
• Added example of GKgamma to vcd-tutorial

vcdExtra 0.3-2

• Added more examples to mosaic.glm.Rd

vcdExtra 0.3-0

• Fixed bugs in mosaic.glm and mosaic.gnm

vcdExtra 0.2

• Added vcd-tutorial vignette

vcdExtra 0.1

• Initial Version on R-Forge.