STATegRa: Classes and methods for multi-omics data integration

Classes and tools for multi-omics data integration.

AuthorSTATegra Consortia
Date of publicationNone
MaintainerDavid Gomez-Cabrero <david.gomezcabrero@ki.se>, Patricia Sebastián-León <psebastian@cipf.es>, Gordon Ball <gordon.ball@ki.se>
LicenseGPL-2
Version1.8.0

View on Bioconductor

Functions

bioDist Man page
bioDist,character,character,bioMap,ExpressionSet,ExpressionSet-m Man page
bioDistclass Man page
bioDistFeature Man page
bioDistFeature,character,list,numeric-method Man page
bioDistFeaturePlot Man page
bioDistW Man page
bioDistW,character,list,matrix-method Man page
bioDistWPlot Man page
bioDistWPlot,character,list,character-method Man page
bioMap Man page
biplotRes Man page
biplotRes,caClass,character,numeric,character-method Man page
Block1 Man page
Block1.PCA Man page
Block2 Man page
Block2.PCA Man page
caClass-class Man page
combiningMappings Man page
createOmicsExpressionSet Man page
createOmicsExpressionSet,matrix-method Man page
ed Man page
ed.PCA Man page
getInitialData Man page
getInitialData,caClass-method Man page
getLoadings Man page
getLoadings,caClass-method Man page
getMethodInfo Man page
getMethodInfo,caClass-method Man page
getPreprocessing Man page
getPreprocessing,caClass-method Man page
getScores Man page
getScores,caClass-method Man page
getVAF Man page
getVAF,caClass-method Man page
holistOmics Man page
holistOmics,list,character-method Man page
mapdata Man page
modelSelection Man page
modelSelection,list,numeric,character-method Man page
omicsCompAnalysis Man page
omicsCompAnalysis,list,character,character,numeric,numeric-metho Man page
omicsNPC Man page
omicsNPC,list,data.frame-method Man page
omicsNPC,list,missing-method Man page
PCA.selection Man page
PCA.selection,matrix,character-method Man page
plotRes Man page
plotRes,caClass,numeric,character,character,logical,character-me Man page
plotVAF Man page
plotVAF,caClass-method Man page
selectCommonComps Man page
selectCommonComps,matrix,matrix,numeric-method Man page
STATegRa Man page
STATegRa_data Man page
STATegRa_data_TCGA_BRCA Man page
STATegRa-deprecated Man page
STATegRa-package Man page
STATegRaUsersGuide Man page
TCGA_BRCA_Data Man page

Files

STATegRa/DESCRIPTION
STATegRa/NAMESPACE
STATegRa/R
STATegRa/R/STATegRa_combiningMappings.R STATegRa/R/STATegRa_fused.R STATegRa/R/STATegRa_holistOmics.R STATegRa/R/STATegRa_omicsCLUST_bioDist.R STATegRa/R/STATegRa_omicsCLUST_bioDistW.R STATegRa/R/STATegRa_omicsCLUST_bioMap.R STATegRa/R/STATegRa_omicsNPC.R STATegRa/R/STATegRa_omicsNPC_internal.R STATegRa/R/STATegRa_omicsPCA_caClass.R STATegRa/R/STATegRa_omicsPCA_methods.R STATegRa/R/STATegRa_omicsPCA_plotting.R STATegRa/R/STATegRa_package.R
STATegRa/build
STATegRa/build/vignette.rds
STATegRa/data
STATegRa/data/STATegRa_S1.rda
STATegRa/data/STATegRa_S2.rda
STATegRa/data/STATegRa_S3.rda
STATegRa/data/TCGA_BRCA_Batch_93.rda
STATegRa/data/datalist
STATegRa/inst
STATegRa/inst/NEWS
STATegRa/inst/doc
STATegRa/inst/doc/STATegRa.R
STATegRa/inst/doc/STATegRa.Rmd
STATegRa/inst/doc/STATegRa.html
STATegRa/inst/unitTests
STATegRa/inst/unitTests/test_PCA.selection.R
STATegRa/inst/unitTests/test_createOmicsExpressionSet.R
STATegRa/inst/unitTests/test_modelSelection.R
STATegRa/inst/unitTests/test_selectCommonComps.R
STATegRa/man
STATegRa/man/PCA.selection.Rd STATegRa/man/STATegRa-deprecated.Rd STATegRa/man/STATegRa.Rd STATegRa/man/STATegRaUsersGuide.Rd STATegRa/man/STATegRa_data.Rd STATegRa/man/STATegRa_data_TCGA_BRCA.Rd STATegRa/man/bioDist.Rd STATegRa/man/bioDistFeature.Rd STATegRa/man/bioDistFeaturePlot.Rd STATegRa/man/bioDistW.Rd STATegRa/man/bioDistWPlot.Rd STATegRa/man/bioDistclass.Rd STATegRa/man/bioMap.Rd STATegRa/man/biplotRes.Rd STATegRa/man/caClass-class.Rd STATegRa/man/combiningMappings.Rd STATegRa/man/createOmicsExpressionSet.Rd STATegRa/man/getInitialData.Rd STATegRa/man/getLoadings.Rd STATegRa/man/getMethodInfo.Rd STATegRa/man/getPreprocessing.Rd STATegRa/man/getScores.Rd STATegRa/man/getVAF.Rd STATegRa/man/holistOmics.Rd STATegRa/man/modelSelection.Rd STATegRa/man/omicsCompAnalysis.Rd STATegRa/man/omicsNPC.Rd STATegRa/man/plotRes.Rd STATegRa/man/plotVAF.Rd STATegRa/man/selectCommonComps.Rd
STATegRa/tests
STATegRa/tests/STATEgRa_Example.omicsCLUST.R
STATegRa/tests/STATEgRa_Example.omicsPCA.R
STATegRa/tests/STATegRa_Example.omicsNPC.R
STATegRa/tests/runTests.R
STATegRa/vignettes
STATegRa/vignettes/STATegRa.Rmd
STATegRa/vignettes/bibliography.bib
STATegRa/vignettes/img
STATegRa/vignettes/img/omicsClustering.jpg
STATegRa/vignettes/img/omicsPCA.png

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.