A number of fixes to imports/NAMESPACE and documentation to make R CMD check happy and to make the updated version of readGMT() work when called from external code rather than interactively.
Details:
document the ... argument to readGMT()
separate the items in @seealso to get them hyperlinked as intended
import utilities such as Biobase::selectSome(), constructor functions used by readGMT() such as GeneSet() and GeneSetCollection() but also as default values such as NullIdentifier() and NullCollection(). Also, we don't need to import getGmt()any longer.
A number of fixes to imports/NAMESPACE and documentation to make
R CMD checkhappy and to make the updated version ofreadGMT()work when called from external code rather than interactively.Details:
...argument toreadGMT()@seealsoto get them hyperlinked as intendedBiobase::selectSome(), constructor functions used byreadGMT()such asGeneSet()andGeneSetCollection()but also as default values such asNullIdentifier()andNullCollection(). Also, we don't need to importgetGmt()any longer.