Build virtual array from different microarray platforms


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Documentation for package ‘virtualArray’ version 1.0.0

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virtualArray-package Combine raw data of several ExpressionSets into a "virtual array".
normalize.ExpressionSet.gq gene quantiles normalization
normalize.ExpressionSet.mc mean centering normalization
normalize.ExpressionSet.mrs median rank scores normalization
normalize.ExpressionSet.nordi normal discretization normalization
normalize.ExpressionSet.qd quantile discretization normalization
virtualArray Combine raw data of several ExpressionSets into a "virtual array".
virtualArrayBuildExprs Format ExpressionSets as data.frames with identifiers in first column
virtualArrayBuildfData Collapses expression values according to given identifiers
virtualArrayBuildSampleInfo Build data.frame suitable as "pData" for several ExpressionSets
virtualArrayComBat Removes batch effects from microarray derived expression matrices. Modified version.
virtualArrayComBat-method Removes batch effects from microarray derived expression matrices. Modified version.
virtualArrayCompile Compiles a single virtual array holding user provided microarray data from multiple platforms.
virtualArrayDirs Build virtualArray directory structure to hold raw data of multiple microarray chips
virtualArrayExpressionSets Combine different ExpressionSets into one
virtualArrayHclust Plot a hclust object with colored labels
virtualArrayLoadRaw Load user provided raw data files in the virtualArray directory structure
virtualArrayMergeRecurse Merge a list of data.frames by common rows