Flush-methods {FLUSH}R Documentation

Flush genes

Description

Perform filetring algorithm on an object of class exprSet or matrix, returning a subsetted object.

Usage

## S4 method for signature 'matrix':
Flush(object, RA, check = TRUE, ...)
## S4 method for signature 'ExpressionSet':
Flush(object, RA, check = TRUE, onlyExprs =
TRUE, which = 1)

Arguments

object An object of class exprSet or matrix
RA An object of class RA as from fitRA and then FlushSet
check logical. If TRUE some additional check on probes name consistency are performed.
onlyExprs logical. If TRUE returns an object of class ExpressionSet with the selected features. If FALSE an object of class FLUSH is returned with the RA object included (for plotting)
which
... additional arguments.Not used.

Details

Value

An object of class FLUSH

Note

Author(s)

Stefano Calza <calza@med.unibs.it>

References

Stefano Calza, Wolfgang Raffelsberger, Alexander Ploner, Jose Sahel, Thierry Leveillard and Yudi Pawitan. Filtering genes to improve sensitivity in oligonucleotide microarray data analysis - 2007 Submitted

See Also

RAplot, fitRA, FlushSet

Examples


## Not run: 
data(choe.MAS5)
data(choe)

choe.RA <- fitRA(choe)
choe.fSet <- FlushSet(choe.RA)
choe.Flush <- Flush(choe.MAS5,choe.fSet, onlyExprs = FALSE)
## End(Not run)

[Package FLUSH version 1.1.0 Index]