Fixes to boxM, improvements in labeling ellipses

Version 1.8.1

This is a large cumulative release of several versions since the last CRAN release.

• label.ellipse() now returns invisibly the coordinates where the label was placed.
• heplot() adds a label.cex argument to control the size of labels on H/E ellipses. The label.pos argument is vectorized, so that the changes to label.ellipse() now apply.
• boxM() & plot.boxM() now correctly handle the situation where one or more groups have singular covariance matrices because !n>p
• Fixed bug in covEllipses.boxM() method. boxM() now returns ngroups and means among it's components.
• add @family tags to improve cross-referencing in documentation

Version 1.8.0

• describe more fully constructing the datasets table using concept tags
• added text_usr() to add text in normalized device coordinates
• begin to convert documentation to use markdown via {roxygen2md}
• label.ellipse() re-written to allow a fully general way to specify label positions [Thx: Claude]

New vignette and distancePlot()

Version 1.7.8

Several small maintenance fixes, plus a new diagnostic plot and a new vignette

o Added distancePlot() for plots of Mahalanobis distances of X vs Y. For an MLM, diagnoses high leverage and large residuals
o Added a vignette on robust MLMs using robmlm() and diagnostic plots
o Added rel_diff() to calulate relative difference between two arrays or data frames
o Fixed buglet in plot.robmlm()
o Fixed some non-canonical URLs
o Fixed cex buglet in distancePlot()

Fix bugs and add some args for better control

Version 1.7.5

Fix bugs and add some args for better control

• Edit description of NLSY data and extend the examples to show coefplot(), cqplot()
• Revise documentation for robmlm()
• Add dev/pulpfiber.R for a classic robust MLM example
• fix default Y axis label in plot.robmlm()
• fixed bug in coefplot.mlm() in selecting terms with parm.
• coefplot.mlm() gains a cex.lab argument
• Fleshed out details of Rohwer dataset PA measures
• Fixed nits from R CMD check

Maintenance; add noteworthy()

Version 1.7.4 (2025-04-15)

This is largely a maintenance release, but adds a function to identify "noteworthy" points in 2D scatterplots.

• added plotting all X vs all Y to Rohwer examples
• added schoolsites dataset, providing additional variables related to the schooldata dataset.
• cqplot() now prints a warning if there are missing cases and also returns the upper tail p-values corresponding to Mahalanobis $D^2$.
• Default method.id in cqplot() changed to "r", to identify points with the largest $D^2$.
• added noteworthy(x, y) as a utility to select "noteworthy" observations in a 2D plot, extending the ideas in car::showLabels()
• corrected some minor documentation problems
• fixed some 301 "moved" URLs
• Now Depends: on R >= 4.1.0 because package uses native pipes |>
• Added Suggests: KernSmooth, aplpack, foreign, used in some demos

New methods /arguments

Version 1.7.3 (2024-12-05)

This is a moderate update, adding new functionality

• leveneTests() gains formula and lm methods
• bartlettTests() gains formula and lm methods
• colDevs() gains a group.var argument; examples extended
• Added uniStats() for an anova version of glance.mlm()
• Corrected documentation of covEllipses() to more accurately describe recycling of arguments.
• size="significance" now allowed as a synonym for size="evidence" in heplot functions.

Version 1.7.2 (2024-11-25)

• Fixed bug in ellipse.axes() re center/centre
• ellipse.axes() gains a type argument to draw lines or arrows
• ellipse.axes() gains a extend argument to extend/shrink the axes

New datasets, new vignette

Version 1.7.1 (2024-11-14)

This is a modest update, adding two new datasets for simple examples and a PDF vignette

• Extended the "datasets" vignette with further description of how this was done.
• Added dogfood and oral datasets, both simple MANOVA examples.
• Added HE Plots for Repeated Measures Designs vignette
• Fixed nits from URLs vanished or moved

v1.7.0

Version 1.7.0 (2024-05-01)

This is a semi-major release, primarily documenting all datasets in the package with @concept tags.
It also adds new datasets and fixes bugs and documentation errors since the last CRAN release (v 1.6.2)

• Added a new example (AddHealth data) to the HE_manova vignette
• Added Overdose data, a simple MMRA example.
• All datasets now classified by @concept tags in documentation, giving the primary methods ("MANOVA", "MMRA", "repeated", ...) that they illustrate. These supplement @keyword tags and appear in the index of the package documentation.
• A new vignette (datasets) lists the datasets in the package, classified by these @concept tags.

Version 1.6.3 (2024-03-05)

• Correct documentation error in cqplot()
• cqplot() now returns DSQ values for identified points
• Fixed small buglet re: labeling of hypothesis ellipses in heplot()

Add new ellipse functions, peng data, fix problems

Version 1.6.2 (2024-02-14)

• Add peng dataset, a version of palmerpenguins::penguins
• Correct documentation problems from Roxygen 7.3.1 (@doctype)

Version 1.6.1 (2023-12-05)

• add warning to label.ellipse() if length(label.pos) > 1
• fixed label.pos in coefplot.mlm()
• add ellipse.axes() to draw axes of a covariance ellipse
• add ellipse.box() to draw conjugate axes of a covariance ellipse

Roxygenize

Version 1.6.0 (2023-08-30)

• converted pkg to roxygen documentation
• now Suggests: car rather than Depends:

New Rmd vignettes; enhanced documentation

• Added cex.label arg to heplot3d()
• Convert old Rnw vignettes to Rmd
• Fix documentation infelicities
• Added TIPI data
• Added glance.mlm() as an extension of broom::glance.lm()