AnthropMMD 4.1.0 (Release date: 2025-10-21)

In the user-interface, the “significance” of MMDs are now decided using Sjovold’s rule-of-thumb (the MMD value must be greater than twice its standard deviation). The p-values are not used for that purpose anymore, since their validity is still highly discussed in the literature, and relies on often unrealistic hypotheses.
In the same spirit, p-values have now been totally removed from the package. {AnthropMMD} now only provides ratios MMD/sd(MMD), as in Bertsatos’ Octave script (see Bertsatos & Chovalopoulou, 2016).

Other minor changes

More unit tests have been added, and some unit tests have been rewritten.
A codemeta.json file has been added to provide a better structure for the package’s metadata.

The internal function mmd_resample() now handles edge cases where resampling problems could arise.
Fixed formula for the computation of sample sizes in mmd_resample().

AnthropMMD now depends on R >= 4.1.0.
New dependencies on third-party R packages ({dplyr}, {MASS}, {rlang}) have been added.

The function mmd() now has another argument, correct (which defaults to TRUE), which allows the user to specify whether the correction for small sample sizes should be applied.
A bootstrap method described by Fidalgo et al. (2022) is now available through the function mmd_boot(). It can be used from the command line interface only; its implemention in the graphical user interface is not planned (at least in a near future).

The code of various functions (in particular binary_to_table()) has been refactored, and should now run faster.
Updated package vignette.

A new generic function, plot(), is added. It replaces plot_mmd(). The old plot_mmd() is not exported anymore.

Fixed warning when the angular transformation is not specified in mmd() function.
Fixed typos in package vignette and documentation files.

Due to some new features implemented in AnthropMMD, the package now depends on R >= 3.5.0.
AnthropMMD now imports {plotrix}.
AnthropMMD now suggests {covr}, {knitr}, {rmarkdown} and {testthat}.

AnthropMMD can now be used by command lines, and not only as an R-shiny application. The main goal is to make AnthropMMD suitable for reproducible research.
An example data file, toyMMD, is now available.
A vignette is now available.
Improved display of group labels on the MDS plots.
Some small improvements in documentation files.

A large majority of comments in the R source files have been translated from French into English.
The reliability of future updates has been improved by implementing unit tests; and a CI pipeline has been set on the GitLab repo.
The indentation style in .R and .Rd files now follows the R standards.

The Shiny app does not crash anymore if the user specifies a wrong field separator.
Fix for the computation of Spearman’s measure of agreement for MDS, where distances were erroneously counted twice. Although the impact was generally negligible, this resulted in a small overestimation of the quality of agreement.