This class describes sets, items and their annotations.
Internally, the method
mgsa indexes all elements of the sets before fitting the model.
mgsa must be run on several observations with the same gene sets, computations can be speeded up by performing this indexing once for all.
This can be achieved by building a
In order to ensure consistency of the indexing, no replace method for any slot is provided. Accessors are available.
The data frames
itemAnnotations allow to store annotations. No constraint is imposed on the number and names of their columns.
A list whose elements are vector of item indices.
The mapping of item names to index.
How many items?
Annotations of the sets. The
rownames are set names.
Annotations of the items. The
rownames are item names.