Package edu.cmu.tetrad.study.gene.tetradapp.model

Class MeasurementSimulatorParams

java.lang.Object
edu.cmu.tetrad.study.gene.tetradapp.model.MeasurementSimulatorParams
All Implemented Interfaces:
TetradSerializable, Serializable
public class MeasurementSimulatorParams extends Object implements TetradSerializable
Wraps MeasurementSimulator so that it may be used as a parameter object.
Version:
$Id: $Id
Author:
josephramsey
See Also:

  • Constructor Details

    • MeasurementSimulatorParams

      public MeasurementSimulatorParams(Parameters parameters)
      Constructs a measurement simulator using the given history. The history will be used to do the simulation of each cell.
      Parameters:
      parameters - a Parameters object
      Throws:
      NullPointerException - if the history argument is null.

  • Method Details

    • serializableInstance

      public static MeasurementSimulatorParams serializableInstance()
      Generates a simple exemplar of this class to test serialization.
      Returns:
      a MeasurementSimulatorParams object

    • setHistory

      public void setHistory(GeneHistory history)

      setHistory.

      Parameters:
      history - a GeneHistory object

    • getDishDishVariability

      public double getDishDishVariability()

      getDishDishVariability.

      Returns:
      a double

    • setDishDishVariability

      public void setDishDishVariability(double value)

      setDishDishVariability.

      Parameters:
      value - a double

    • getSampleSampleVariability

      public double getSampleSampleVariability()

      getSampleSampleVariability.

      Returns:
      a double

    • setSampleSampleVariability

      public void setSampleSampleVariability(double value)

      setSampleSampleVariability.

      Parameters:
      value - a double

    • getChipChipVariability

      public double getChipChipVariability()

      getChipChipVariability.

      Returns:
      a double

    • setChipChipVariability

      public void setChipChipVariability(double value)

      setChipChipVariability.

      Parameters:
      value - a double

    • getPixelDigitalization

      public double getPixelDigitalization()

      getPixelDigitalization.

      Returns:
      a double

    • setPixelDigitalization

      public void setPixelDigitalization(double value)

      setPixelDigitalization.

      Parameters:
      value - a double

    • getNumDishes

      public int getNumDishes()

      getNumDishes.

      Returns:
      a int

    • setNumDishes

      public void setNumDishes(int value)

      setNumDishes.

      Parameters:
      value - a int

    • getNumCellsPerDish

      public int getNumCellsPerDish()

      getNumCellsPerDish.

      Returns:
      a int

    • setNumCellsPerDish

      public void setNumCellsPerDish(int value)

      setNumCellsPerDish.

      Parameters:
      value - a int

    • getNumSamplesPerDish

      public int getNumSamplesPerDish()

      getNumSamplesPerDish.

      Returns:
      a int

    • setNumSamplesPerDish

      public void setNumSamplesPerDish(int value)

      setNumSamplesPerDish.

      Parameters:
      value - a int

    • getStepsGenerated

      public int getStepsGenerated()

      getStepsGenerated.

      Returns:
      a int

    • setStepsGenerated

      public void setStepsGenerated(int value)

      setStepsGenerated.

      Parameters:
      value - a int

    • getFirstStepStored

      public int getFirstStepStored()

      getFirstStepStored.

      Returns:
      a int

    • setFirstStepStored

      public void setFirstStepStored(int value)

      setFirstStepStored.

      Parameters:
      value - a int

    • getInterval

      public int getInterval()

      getInterval.

      Returns:
      a int

    • setInterval

      public void setInterval(int value)

      setInterval.

      Parameters:
      value - a int

    • isInitSync

      public boolean isInitSync()

      isInitSync.

      Returns:
      a boolean

    • setInitSync

      public void setInitSync(boolean selected)

      setInitSync.

      Parameters:
      selected - a boolean

    • isRawDataSaved

      public boolean isRawDataSaved()

      isRawDataSaved.

      Returns:
      a boolean

    • setRawDataSaved

      public void setRawDataSaved(boolean selected)

      setRawDataSaved.

      Parameters:
      selected - a boolean

    • isAntilogCalculated

      public boolean isAntilogCalculated()

      isAntilogCalculated.

      Returns:
      a boolean

    • setAntilogCalculated

      public void setAntilogCalculated(boolean selected)

      setAntilogCalculated.

      Parameters:
      selected - a boolean

    • getSimulator

      public MeasurementSimulator getSimulator()

      Getter for the field simulator.

      Returns:
      a MeasurementSimulator object

    • simulate

      public void simulate(GeneHistory history)

      simulate.

      Parameters:
      history - a GeneHistory object

    • getMeasuredData

      public double[][][] getMeasuredData()

      getMeasuredData.

      Returns:
      an array of double objects

    • getTimeSteps

      public int[] getTimeSteps()

      getTimeSteps.

      Returns:
      an array of int objects

    • getRawData

      public double[][][] getRawData()

      getRawData.

      Returns:
      an array of double objects

    • isIncludeDishAndChipVariables

      public boolean isIncludeDishAndChipVariables()

      isIncludeDishAndChipVariables.

      Returns:
      a boolean

    • setIncludeDishAndChipVariables

      public void setIncludeDishAndChipVariables(boolean includeDishAndChipVariables)

      Setter for the field includeDishAndChipVariables.

      Parameters:
      includeDishAndChipVariables - a boolean