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Adds MineICA, SomatiCA and lpNet to the repos.

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/MineICA@73179 bc3139a8-67e5-0310-9ffc-ced21a209358

Marc Carlson authored on 05/02/2013 22:15:53
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+\name{dat}
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+\alias{dat}
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+\alias{dat,IcaSet-method}
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+\alias{dat<-}
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+\alias{dat<-,IcaSet-method}
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+\alias{dat<-,IcaSet,matrix-method} 
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+\alias{datByGene}
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+\alias{datByGene,IcaSet-method}
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+\alias{datByGene<-}
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+\alias{datByGene<-,IcaSet-method}
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+\alias{datByGene<-,IcaSet,matrix-method} 
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+
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+\alias{geneNames}
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+\alias{geneNames,IcaSet-method}
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+
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+
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+\title{Retrieve and set data from IcaSet}
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+\description{
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+  These generic functions access and set the attributes dat stored in an object of class \code{IcaSet}.
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+}
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+\usage{
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+dat(object)
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+dat(object) <- value
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+datByGene(object)
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+datByGene(object) <- value
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+geneNames(object)
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+}
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+\arguments{
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+  \item{object}{object of class \code{IcaSet}}
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+  \item{value}{Matrix with rows representing features or genes and columns samples.}
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+}
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+
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+\value{
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+  \code{dat} and \code{datByGene} return a matrix containing measured values (e.g
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+  expression data) indexed by features and genes, respectively.
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+  \code{geneNames} returns the names of the genes, i.e the row names of
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+  \code{datByGene}.
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+}
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+\author{Anne}
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+
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+