Man pages for ybukhman/SynergyScreen
Analyze and simulate synergy screen data
| boxplot-SynergyScreen-method | Box plot |
| character-class | S3 class registered as S4 |
| checkRange | Check response ranges of dose-response experiments. |
| Compound-class | An S4 class to represent a compound |
| CompoundList-class | An S4 class to represent a list of compounds |
| computeSynergies | Compute synergy values |
| designFile2SynergyScreen | Initialize a SynergyScreen object from a design file |
| designSummary | Output a summary table for synergy screen design with... |
| DRE-accessors | Accessor methods for class DRE |
| DRE-class | An S4 class representing a dose-response experiment of an... |
| dreData | Retrive doses, normalized responses and effects |
| DREList-class | An S4 class to represent a list of DRE objects |
| DRModel-class | A virtual S4 class representing a Dose-Response Model |
| DRModelLOESS-class | An S4 class representing LOESS model of a dose-response curve |
| DRModelMElm-class | An S4 class representing median effect model of a... |
| DRModelMEnls-class | An S4 class representing median effect model of a... |
| effectiveDose | Compute the dose that causes specified fractional effect |
| findSynergies | Find pairs of compounds that show synergy or antagonism |
| fit | Fit a model to an object's data. |
| generateDesign | Generate design of microtiter plate-based synergy screening... |
| initialize-DRE-method | Initialise a DRE object |
| initialize-SynergyExperiment-method | Initialise a SynergyExperiment object |
| interactionIndex | Compute Interaction Index based on Loewe Additivity |
| labelledData | Retrieve labelled data |
| lm-class | S3 class registered as S4 |
| loess-class | S3 class registered as S4 |
| meq | Median Effect Equation |
| Model-class | A virtual S4 class representing a fitted model or an error... |
| nls-class | S3 class registered as S4 |
| normalize-SynergyScreen-method | Normalize synergy screen data |
| plot-DRE-missing-method | Plot a DRE object |
| plotIsoboles | Plot isoboles for a specified synergy experiment |
| plotMEQ | Plot median effect equation |
| plot-SynergyExperiment-missing-method | Plot a SynergyExperiment object |
| plot-SynergyScreen-missing-method | Plot a SynergyScreen object. |
| predict-DRModelLOESS-method | Predict response values from a DRModelLOESS object |
| predict-DRModelMElm-method | Predict response values from a DRModelMElm object |
| predict-DRModelMEnls-method | Predict response values from a DRModelMEnls object |
| readCompoundFile | Load a spreadsheet of compounds |
| readTecanData | Extract raw data from a set of Tecan files |
| readTecanFile | Read Tecan file |
| readWideData | Read synergy screen data in a wide format |
| readWideDataFlex | Read synergy screen data in a wide format from a CSV file of... |
| ScreenData-class | S4 class for a synergy screen data |
| ScreenDesign-class | S4 class for a synergy screen design |
| sim15_screen3 | Simulated screen of 15 compounds and their pairwise... |
| simulate | Simulate an object. |
| SynergyData-class | S4 class for a synergy data |
| SynergyExperiment-class | S4 class for a synergy experiment |
| SynergyExperimentList-class | An S4 class to represent a list of SynergyExperiment objects |
| SynergyScreen-accessors | Accessor methods for class SynergyScreen |
| SynergyScreen-class | S4 class for a synergy screen |
| SynergyScreen-package | Analyze and simulate synergy screen data. |
| transferTrueValues | Transfer "true" values of various parameters from one object... |
| writeWide | Write out a data frame-like object in a wide format |
