CancerInSilico          CancerInSilico
CellModel-class         CellModel
CellType-class          CellType
DrasdoHohmeModel-class
                        DrasdoHohmeModel
Drug-class              Drug
GeneExpressionParams-class
                        GeneExpressionParams
OffLatticeModel-class   OffLatticeModel
Pathway-class           Pathway Class
calibratePathway        calibrate pathway with data
cellSummary             summary of cell model at a given time
checkDataSet            verify gene expression data set is valid for
                        this package
getAxisAngle            get cell axis angle at a given time
getAxisLength           get cell axis length at a given time
getCellDistance         get distance between two cells
getCellPhase            get phase of a cell at a given time
getCellType             get type of a cell at a given time
getCoordinates          get coordinates of a cell at a given time
getCycleLength          get cycle length of a cell at a given time
getDensity              get density of the cell population at a given
                        time
getLocalDensity         get neighborhood density around a cell at a
                        given time
getNumberOfCells        get number of cells in the model at a given
                        time
getRadius               get cell radius at a given time
getTrialAcceptRate      get rate of growth acceptance of a given cell
                        at a given time
inSilicoCellModel       Simulates Cell Model
inSilicoGeneExpression
                        simulate gene expression data
inSilicoPathways        This data contains the list of gene targets of
                        modeled signaling pathways
initialize,CellModel-method
                        Constructor for CellModel
initialize,DrasdoHohmeModel-method
                        DrasdoHohmeModel Constructor
initialize,OffLatticeModel-method
                        Off-Lattice Model Constructor
interactivePlot         plot the cell population and interactively
                        scroll through time points
modCellTypes            sample cell model
modDefault              sample cell model
modDrugs                sample cell model
modHighDensity          sample cell model
modLargeRun             sample cell model
modLongRun              sample cell model
plotCells               plot cell population at a given time
pwyContactInhibition    sample pathway
pwyGrowth               sample pathway
pwyMitosis              sample pathway
pwySPhase               sample pathway
referenceGeneExpression
                        gene expression data for genes in sample
                        pathways
run                     run a cell model
