calcA {maigesPack} | R Documentation |
Generic function calcA
to calculate A values from
classes of microarray data objects defined in this package.
calcA(object, ...) ## Default S3 method: calcA(object, ...) ## S3 method for class 'maigesRaw': calcA(object, bkgSub="subtract", ...)
object |
object of any class. But only some methods are defined in this moment. |
bkgSub |
character string indicating the type of background subtraction. May be 'none', 'subtract', 'half', 'minimum', 'movingmin', 'edwards', 'normexp' or 'rma'. Uses limma and defaults to 'subtract'. |
... |
additional parameters for calcA method. |
This method receive an object (at moment of class
maiges
, maigesRaw
or
maigesANOVA
) and returns the matrix of A values. For
objects of class maigesRaw
it uses the function
backgroundcorrect
from limma package to do
background correction before the calculation of A values.
Gustavo H. Esteves <gesteves@vision.ime.usp.br>
backgroundcorrect
in the limma package and calcW
.
## Loading the dataset data(gastro) calcA(gastro.raw) calcA(gastro.norm)