Man pages for Sage-Bionetworks/fendR
Feature Engineering by Network Domain

addGenotypeClass'addGenotypeClass' takes a WT and KO set of features and...
addResponseClass'addResponseClass' takes an expression set and thresholds...
buildNetwork'buildNetwork' Identifies drugs in a
cellLineMappingcellLineMapping
doAllNetworkAssess'doAllNetworkAssess' does all the network stuff
drugNameMappingdrugNameMapping
edgeList2matrixedgeList2matrix convertion and write out
getDrugIds'getDrugIds' Identifies drugs in a
getDrugNames'getDrugNames' Identifies drugs in a
getDrugs'getDrugs' Identifies drugs in a
getDrugsFromGraph'getDrugsFromGraph' Identifies drugs in a
getDrugTargets'getDrugTargets' Gets drug target graph and returns table of...
getGraphSaveVis'getGraphSaveVis' Grabs a graph object stored on synapse,...
getViperForDrug'getViperForDrug' takes an expression set and a list of drugs...
getViperProtExpressionEnrich'getViperProtExpressionEnrich' Gets viper proteins from...
loadDrugGraph'loadDrugGraph' Identifies drugs in a
loadEset'loadEset' takes the rna seq and pheno test files and builds...
loadPhenotypeDataLoad phenotype data
loadSampleDataLoad sample data
loadTargetDataLoad target/snp data
plotDrugs'plotDrugs' carries out the plotting mechanism for a single...
plotDrugsAcrossData'plotDrugsAcrossData' Gets drugs from network and plots...
renameDrugIds'renameDrugIds' Remaps drug ids to drug names for...
runPcsfWithParams'runPcsfWithParams' Identifies drugs in a
runViperOnDset'runViperOnDset' takes an expression set and runs viper with...
shuffleTerminalsAndRun'shuffleTerminalsAndRun' will shuffle terminals for a...
translateMatrixIdentifierstranslateMatrixIdentifiers
Sage-Bionetworks/fendR documentation built on May 3, 2019, 8:34 p.m.