2.Classes {limma} | R Documentation |
This package defines the following data classes.
RGList
read.maimages
.MAList
RGList
using MA.RG
or normalizeWithinArrays
.
Objects of this class contain one row for each spot.
There may be more than one spot and therefore more than one row for each probe.MArrayLM
lmFit
.
Objects of this class normally contain only one row for each unique probe.TestResults
classifyTests
, classifyTestsP
or classifyTestsT
.
Objects of this class normally contain one row for each unique probe.
All these data classes obey many analogies with matrices.
In the case of RGList
and MAList
, rows correspond to spots and columns to arrays.
In the case of MarrayLM
, rows correspond to unique probes and the columns to parameters or contrasts.
The functions 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).
The first three classes belong to the virtual class LargeDataObject
.
A show
method is defined for LargeDataOject
s which uses the utility function printHead
.
Gordon Smyth