sba1/mgsa-bioc — pull request #1 by alyst (2014-09-17 23:53:50+00:00)
Title: Fix subMgsaSets()

subMgsaSets() method is very handy when set enrichment needs to be checked within the constrained pool of genes.
The update fixes some issues in the current implementation:
- instead of the item ids (i.e. Entrez Gene IDs) the user has to provide item indices
- item and set annotations are not preserved
- in the subsetted MgsaSets the original item ids are replaced by item indices