Previous release included a dedicated importer for Gene Ontology modules. It created a different module for each GO term with only the genes directly annotated for the GO term. In the version 1.5.5 we have modified the importer to take into account the hierarchy of dependencies between GO terms in a way that the genes associated with the module will be those directly annotated for the GO term plus the ones annotated for any of the GO term descendants.

Example:

Given the following GO tree and gene annotations

GO:001 –> GENE:001, GENE:002

+–GO:002 –> GENE:003

Previous release would generate 2 modules:

GO:001 with genes GENE:001, GENE:002

GO:002 with genes GENE:003

Release 1.5.5 would generate 2 modules as follows:

GO:001 with genes GENE:001, GENE:002, GENE:003

GO:002 with genes GENE:003

If any of you would still like to have the old way of importing GO terms available, let me know and we will considere having both options in the importer.

Users are able to report bugs or ask for new features or support at https://bg.upf.edu/forge/projects/gitools

Download Now! Gitools 1.5.5 (22.39 MB)