Toolbox for performing and illustrating microarray data analyses


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Documentation for package `compdiagTools' version 1.5.3

User Guides and Package Vignettes

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Help Pages

addonPreprocessing Incremental Preprocessing
boxplt.cpd Boxplot of Expression Levels
boxplt.plmset.cpd Boxplot of Expression Levels
consensusCluster Consensus Clustering
cpdTable cpdTable - creates a HTML table from a data frame
factorplot Visualize factor like data
geneImager geneImager
geneLister geneLister - tool for pretty gene listing
getGOTable getGOTable function
getPubmedEntry Fetch a Pubmed Entry into a R List
gokeggLister Evaluate Overrepresentation of GO Terms and Pathways in Gene Lists
greenred.colors Green to red Color Gradiant
image.consensusCluster Illustrate Consensus Clustering
makeCDNAlayout layout creator
MvsA.cpd Rank-vs-Residual Plots
optimTree Optimal reordering of hclust objects
optimTree.dendrogram Change an hclust to a dendrogram object while keeping the given ordering
optimTree.plot Produces a clusterplot with optimal rearrangement of samples
plotIsis Plot Clustered ISIS Results
randomDLDscores ~~function to do ... ~~
removeRedundantSplits Remove redundant isis splits
runCDNAPreprocessing Preprocessing of a CDNA Dataset
runPreprocessing Pre-processing of an Affymetrix Dataset
weightedHammingDist Distance to compare two splits
wimage.cpd Draw an Image of Residuals
wimage.resids Draw an Image of Residuals