dksWeights

An <code>ExpressionSet</code> or <code>matrix</code> containing the gene 
		expression data to be used for bootstrapping.

eset

A factor with two or more levels indicating which 
				class each sample in the expression set belongs OR 
				an integer indicating which column of pData(eset) 
				contains this information.

class


	Prior to selecting genes it may be desirable to calculate weights 
	for each genes so that some genes are more likely than others to be
	included in the gene signature all other things being equal.  This 
	function will calculate an N x M weight matrix for N genes in <code>data</code> 
	and M unique classes in <code>class</code>.  The weights are based on 
	mean expression of each gene in each class such that genes that are 
	highly expressed on average in a given class will be weighted more 
	highly when scoring genes for that class.
	
	The resulting weight matrix can be bassed to <code><a rd-options="" href="/link/dksTrain?package=dualKS&version=1.32.0" data-mini-rdoc="dualKS::dksTrain">dksTrain</a></code> as 
	the <code>weights</code> argument.


classif

This package implements a Kolmogorov Smirnov rank-sum based
algorithm for training (i.e. discriminant analysis--identification
of genes that discriminate between classes) and classification
of gene expression data sets.  One of the chief strengths of
this approach is that it is amenable to the "multiclass" problem.
That is, it can discriminate between more than 2 classes.

Eric J Kort

dualKS

Dual KS Discriminant Analysis and Classification

dksWeights function

An <code>ExpressionSet</code> or <code>matrix</code> containing the gene 
		expression data to be used for bootstrapping.

A factor with two or more levels indicating which 
				class each sample in the expression set belongs OR 
				an integer indicating which column of pData(eset) 
				contains this information.

Prior to selecting genes it may be desirable to calculate weights 
	for each genes so that some genes are more likely than others to be
	included in the gene signature all other things being equal.  This 
	function will calculate an N x M weight matrix for N genes in <code>data</code> 
	and M unique classes in <code>class</code>.  The weights are based on 
	mean expression of each gene in each class such that genes that are 
	highly expressed on average in a given class will be weighted more 
	highly when scoring genes for that class.
	
	The resulting weight matrix can be bassed to <code><a href="dksTrain" rd-options="">dksTrain</a></code> as 
	the <code>weights</code> argument.

dksWeights: Calculate gene weights based on average expression.

Description

Usage

Arguments

Value

See Also

Examples