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 |
| cellLineMapping | cellLineMapping |
| doAllNetworkAssess | 'doAllNetworkAssess' does all the network stuff |
| drugNameMapping | drugNameMapping |
| edgeList2matrix | edgeList2matrix 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... |
| loadPhenotypeData | Load phenotype data |
| loadSampleData | Load sample data |
| loadTargetData | Load 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... |
| translateMatrixIdentifiers | translateMatrixIdentifiers |
