| RGList_CALIB-class {CALIB} | R Documentation |
A simple list-based class for storing red and green channel foreground and background intensities for a batch of spotted microarrays. It is a extension of the RGList in the LIMMA package.
Objects can be created by calls of the form new("RGList_CALIB", RG), where RG is a list.
In the CALIB package, RGList_CALIB objects are normally generated by
read.rg.
objects should contain the following list components:
R:G:Rb:Gb:RArea:GArea:Optional components include:
weights:printer:read.rg.genes:targets:other:All of the matrices should have the same dimensions. The row dimension of targets should match the column dimension of the matrices.
Class "list", from data part.
Class "LargeDataObject", directly.
Class "vector", by class "list".
This class inherits directly from class List so any operation appropriate for lists will
work on objects of this class. In addition, RGList_CALIB objects can be subsetted,
combined and merged. RGList_CALIB objects
will return dimensions and hence functions such as dim,
dimnames, nrow and
ncol are defined. RGList_CALIB also inherit a show
method from the virtual class LagerDataObject,
which means that RGList_CALIB objects will print in a compact way.
In the CALIB package, RGList_CALIB objects are mainly for storing microarray data and they are
used to pass microarray data into functions such as estimateParameter
or normalizeData.
Hui Zhao
RGList in the limma package
RGList and LargeDataObject in limma packge.