Analysis of Large-Scale Radio-Genomic Data
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Documentation for package ‘RadioGx’ version 1.4.0
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| .RadioSet | A Class to Contain RadioGenomic datasets together with their curations |
| annotation-method | A Class to Contain RadioGenomic datasets together with their curations |
| annotation<--method | A Class to Contain RadioGenomic datasets together with their curations |
| availableRSets | Return a table of RadioSets available for download |
| cellInfo-method | A Class to Contain RadioGenomic datasets together with their curations |
| cellInfo<--method | A Class to Contain RadioGenomic datasets together with their curations |
| cellNames-method | A Class to Contain RadioGenomic datasets together with their curations |
| cellNames<--method | A Class to Contain RadioGenomic datasets together with their curations |
| checkRSetStructure | A function to verify the structure of a RadioSet |
| clevelandSmall | Cleaveland_mut RadioSet subsetted |
| computeAUC | computeAUC: computes AUC |
| computeD10 | Compute D10 |
| computeSF2 | Compute SF2 |
| curation-method | A Class to Contain RadioGenomic datasets together with their curations |
| curation<--method | A Class to Contain RadioGenomic datasets together with their curations |
| datasetType-method | A Class to Contain RadioGenomic datasets together with their curations |
| datasetType<--method | A Class to Contain RadioGenomic datasets together with their curations |
| dateCreated-method | A Class to Contain RadioGenomic datasets together with their curations |
| dim-method | Get the dimensions of a RadioSet |
| doseResponseCurve | Plot drug response curve of a given drug and a given cell for a list of rSets (objects of the RadioSet class). |
| downloadRSet | Download a RadioSet object |
| featureInfo-method | A Class to Contain RadioGenomic datasets together with their curations |
| featureInfo<--method | A Class to Contain RadioGenomic datasets together with their curations |
| fNames-method | A Class to Contain RadioGenomic datasets together with their curations |
| fNames<--method | A Class to Contain RadioGenomic datasets together with their curations |
| linearQuadraticModel | Fit linear-quadratic curves to dose-response data |
| mDataNames-method | mDataNames |
| molecularProfiles-method | A Class to Contain RadioGenomic datasets together with their curations |
| molecularProfiles<--method | A Class to Contain RadioGenomic datasets together with their curations |
| molecularProfilesSlot-method | A Class to Contain RadioGenomic datasets together with their curations |
| molecularProfilesSlot<--method | A Class to Contain RadioGenomic datasets together with their curations |
| name-method | A Class to Contain RadioGenomic datasets together with their curations |
| pertNumber-method | A Class to Contain RadioGenomic datasets together with their curations |
| pertNumber<--method | A Class to Contain RadioGenomic datasets together with their curations |
| phenoInfo-method | A Class to Contain RadioGenomic datasets together with their curations |
| phenoInfo<--method | A Class to Contain RadioGenomic datasets together with their curations |
| plotCurve | Plot radiation dose-response curve |
| radiationInfo | radiationInfo Generic |
| radiationInfo-method | A Class to Contain RadioGenomic datasets together with their curations |
| radiationInfo<- | radiationInfo<- Generic |
| radiationInfo<--method | A Class to Contain RadioGenomic datasets together with their curations |
| radiationTypes | radiationTypes Generic |
| radiationTypes-method | A Class to Contain RadioGenomic datasets together with their curations |
| radiationTypes<- | radiationTypes<- Generic |
| radiationTypes<--method | A Class to Contain RadioGenomic datasets together with their curations |
| RadioSet | RadioSet constructor |
| RadioSet-class | A Class to Contain RadioGenomic datasets together with their curations |
| RadioSig | Radiation Signature Class Constructor |
| radSensitivitySig | Creates a signature representing the association between gene expression (or other molecular profile) and radiation dose response, for use in radiation sensitivity analysis. |
| sensitivityInfo-method | A Class to Contain RadioGenomic datasets together with their curations |
| sensitivityInfo<--method | A Class to Contain RadioGenomic datasets together with their curations |
| sensitivityMeasures-method | A Class to Contain RadioGenomic datasets together with their curations |
| sensitivityProfiles-method | A Class to Contain RadioGenomic datasets together with their curations |
| sensitivityProfiles<--method | A Class to Contain RadioGenomic datasets together with their curations |
| sensitivityRaw-method | A Class to Contain RadioGenomic datasets together with their curations |
| sensitivityRaw<--method | A Class to Contain RadioGenomic datasets together with their curations |
| sensitivitySlot-method | A Class to Contain RadioGenomic datasets together with their curations |
| sensitivitySlot<--method | A Class to Contain RadioGenomic datasets together with their curations |
| sensNumber-method | A Class to Contain RadioGenomic datasets together with their curations |
| sensNumber<--method | A Class to Contain RadioGenomic datasets together with their curations |
| show-method | Show a RadioSet |
| show-method | Show RadioGx Signatures |
| showSigAnnot-method | Show the Annotations of a signature object |
| subsetTo-method | A function to subset a RadioSet to data containing only specified radiations, cells and genes |
| summarizeMolecularProfiles-method | Takes molecular data from a RadioSet, and summarises them into one entry per drug |
| summarizeSensitivityProfiles-method | Takes the sensitivity data from a RadioSet, and summarises them into a drug vs cell line table |
| [-method | '[' |