Regenerate the example MultiAssayExperiment object with ggplot2 4.0, because it cannot load objects saved by previous ggplot2 versions. Since the reverse is also true, add a dependency on ggplot2 4.0.
Correct the name of a dataset loaded from TENET in make-data.R, which was changed late in the development process but not changed in this script
Update the link to the example TAD dataset to use the Internet Archive since the original URL is no longer accessible
Do not suggest installing the development version of Bioconductor to use the stable version of the package, since it is no longer necessary
Update installation instructions for Ubuntu 24.04 and add a missing required package
Add CITATION file
Add TENET to Suggests field in DESCRIPTION