The preliminaries menu contains a range of actions and manipulations of datasets that usually are preliminary steps before other analyses.
The most important of these functions is arguably the Procrustes fit. There are also facilities for finding outliers and for producing covariance matrices from datasets.
Manipulations of datasets include creating new datasets with just a selection of the landmarks in the original data, splitting datasets according to the values of a classifier or combining multiple datasets into one, averaging observations in a dataset, and linking datasets so that their observations can be related to each other in subsequent analyses (e.g. regression, partial least squares).
Finally, there are some commands relating to graphical output from MorphoJ. There is an interface for creating or modifying wireframes, sets of lines linking the landmarks in a configuration, which can be used for visualizing shape changes as part of the graphical output of results. Also, there is a command for setting various options for the different types of graphs for displaying shapes.