DatPkg-class {Category} | R Documentation |
DatPkg
is a VIRTUAL
class for representing annotation
data packages.
AffyDatPkg
is a subclass of DatPkg
used to represent
standard annotation data packages that follow the format of Affymetrix
expression array annotation.
YeastDatPkg
is a subclass of DatPkg
used to represent
the annotation data packages for yeast. The yeast chip packages are
based on sgd and are internally different from the AffyDataPkg
conforming packages.
Org.XX.egDatPkg
is a subclass of DatPkg
used to
represent the org.*.eg.db
organism-level Entez Gene based
annotation data packages.
A virtual Class: No objects may be created from it.
Given the name of an annotation data package, DatPkgFactory
can
be used to create an appropriate DatPkg
subclass.
See showMethods(classes="DatPkg")
.
The set of methods, ID2EntreizID
map between the standard
IDs for an organism, or Chip and EntrezIDs, typically to give
a way to get the GO terms. Different organisms, such as S. cerevisae
and A. thaliana have their own internal IDs, so we need specialized methods
for them.
Seth Falcon
DatPkgFactory("hgu95av2") ## Not run: DatPkgFactory("org.Sc.sgd") DatPkgFactory("org.Hs.eg.db") DatPkgFactory("ag") ## End(Not run)