dataTransform {Envisage} | R Documentation |
Ensures that the gene expression data from the
ExpressionSet
object is in
the correct format for package Envisage.
dataTransform(expData)
expData |
Object of class
ExpressionSet containing
gene expression data. |
The Envisage package contains methods allowing the use of linear models (LMs) for analysing significantly changing genes in experiments with a variety of sources of variation, be they experimentally controlled variables such as drug treatment or time, or non-controlled sources of confounding variation such as phenotypic or environmental differences. This allows all sources of variation to be considered when analysing for significant differential expression, ensuring resulting genes are biologically relevent to the experimental question.
The function dataTransform
is an internal
function that ensures that the gene expression data (in the
form of an object of class
ExpressionSet
) is in the
correct format for future processing. In particular, this function
ensures that data is in a logged format.
dataTransform
is an internal function and is
not designed to be accessed by users.
Returns a matrix of processed expression values (this may be very large).
Sam Robson S.C.Robson@warwick.ac.uk
Robson, S. C., Hunter, E., Bird, H., Turner, H. (2008) Envisage: model-based significance analysis of microarray gene expression data, manuscript in preparation
For the main Envisage method, see
envisage
.