02.Classes: Topic: Classes Defined by this Package
Description
This package defines the following data classes.
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
All these data classes obey many analogies with matrices.
In the case of RGList, MAList, EListRaw and EList, rows correspond to spots or probes and columns to arrays.
In the case of MarrayLM, rows correspond to unique probes and the columns to parameters or contrasts.
The functions summary, dim, length, ncol, nrow, dimnames, rownames, colnames have methods for these classes.
Objects of any of these classes may be subsetted.
Multiple data objects may be combined by rows (to add extra probes) or by columns (to add extra arrays).
Furthermore all of these classes may be coerced to actually be of class matrix using as.matrix, although this entails loss of information.
Fitted model objects of class MArrayLM can be coerced to class data.frame using as.data.frame.
The first three classes belong to the virtual class LargeDataObject.
A show method is defined for LargeDataOjects which uses the utility function printHead.See Also
01.Introduction,
02.Classes,
03.ReadingData,
04.Background,
05.Normalization,
06.LinearModels,
07.SingleChannel,
08.Tests,
09.Diagnostics,
10.GeneSetTests,
11.RNAseq