Classes and methods for multi-omics data integration

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Documentation for package ‘STATegRa’ version 1.34.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

STATegRa-package	STATegRa
bioDist	bioDist
bioDist-method	bioDist
bioDistclass	bioDistclass
bioDistFeature	bioDistFeature
bioDistFeature-method	bioDistFeature
bioDistFeaturePlot	bioDistFeaturePlot
bioDistW	bioDistW
bioDistW-method	bioDistW
bioDistWPlot	bioDistWPlot
bioDistWPlot-method	bioDistWPlot
bioMap	bioMap
Block1	STATegRa data
Block1.PCA	STATegRa data
Block2	STATegRa data
Block2.PCA	STATegRa data
caClass-class	caClass
combiningMappings	combiningMappings, combining several mappings for use in the omicsNPC function
createOmicsExpressionSet	createOmicsExpressionSet
createOmicsExpressionSet-method	createOmicsExpressionSet
ed	STATegRa data
ed.PCA	STATegRa data
getInitialData	Retrieve initial data from caClass objects
getInitialData-method	Retrieve initial data from caClass objects
getLoadings	Retrieve component analysis loadings
getLoadings-method	Retrieve component analysis loadings
getMethodInfo	Retrieve information about component analysis method
getMethodInfo-method	Retrieve information about component analysis method
getPreprocessing	Retrieve information about preprocessing
getPreprocessing-method	Retrieve information about preprocessing
getScores	Retrieve component analysis scores
getScores-method	Retrieve component analysis scores
getVAF	Retrieve information abotut VAF
getVAF-method	Retrieve information abotut VAF
holistOmics	HolistOmics an application of NPC on omics datasets
holistOmics-method	HolistOmics an application of NPC on omics datasets
mapdata	STATegRa data
modelSelection	Find optimal common and distinctive components
modelSelection-method	Find optimal common and distinctive components
omicsCompAnalysis	Components analysis for multiple objects
omicsCompAnalysis-method	Components analysis for multiple objects
omicsNPC	omicsNPC, applying the Non-Parametric Combination (NPC) on omics datasets
omicsNPC-method	omicsNPC, applying the Non-Parametric Combination (NPC) on omics datasets
plotRes	Plot component analysis results
plotRes-method	Plot component analysis results
plotVAF	Plot VAF (Variance Explained For) from Component Analysis
plotVAF-method	Plot VAF (Variance Explained For) from Component Analysis
STATegRa	STATegRa
STATegRa-defunct	Defunct functions in STATegRa
STATegRaUsersGuide	STATegRaUsersGuide
STATegRa_data	STATegRa data
STATegRa_data_TCGA_BRCA	STATegRa data
TCGA_BRCA_Data	STATegRa data