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It is a good practice to provide to the users some getters to access/format the internal slots of the objects
It would be nice to implement "classical" getters, such as organism() for Bgee class objects
It would be nice to define a "show" method for Bgee class objects to display the object in a user friendly way
Currently the topAnatData objects are shown using the show method of the topGOdata class (that it inherits) and is not so appropriate. For example:
------------------------- topGOdata object -------------------------
Description:
- topAnatData class object, ready for anatomical ontology enrichment test
Ontology:
- UBERON ontology describing animal anatomical structures
100 available genes (all genes from the array):
- symbol: ENSMUSG00000064370 ENSMUSG00000064368 ENSMUSG00000064367 ENSMUSG00000064363 ENSMUSG00000065947 ...
- 10 significant genes.
99 feasible genes (genes that can be used in the analysis):
- symbol: ENSMUSG00000064370 ENSMUSG00000064368 ENSMUSG00000064367 ENSMUSG00000064363 ENSMUSG00000065947 ...
- 9 significant genes.
GO graph (nodes with at least 1 genes):
- a graph with directed edges
- number of nodes = 182
- number of edges = 278
------------------------- topGOdata object -------------------------
This method could be overwritten to display topAnatData object in a more relevant manner (without refering to GO for example...). See the topGO show method:
It is a good practice to provide to the users some getters to access/format the internal slots of the objects
organism()
forBgee
class objectsBgee
class objects to display the object in a user friendly waytopAnatData
objects are shown using theshow
method of thetopGOdata
class (that it inherits) and is not so appropriate. For example:This method could be overwritten to display
topAnatData
object in a more relevant manner (without refering to GO for example...). See thetopGO
show method:The text was updated successfully, but these errors were encountered: