Package qupath.ext.braian.config

Class WatershedCellDetectionConfig

java.lang.Object
qupath.ext.braian.config.WatershedCellDetectionConfig
public class WatershedCellDetectionConfig extends Object

  • Constructor Details

    • WatershedCellDetectionConfig

      public WatershedCellDetectionConfig()

  • Method Details

    • findThreshold

      public static int findThreshold(ImageChannelTools channel, AutoThresholdParmameters params)

    • build

      public Map<String,?> build(ImageChannelTools channel)

    • getDetectionImage

      public String getDetectionImage()

    • getRequestedPixelSizeMicrons

      public double getRequestedPixelSizeMicrons()

    • getBackgroundRadiusMicrons

      public double getBackgroundRadiusMicrons()

    • isBackgroundByReconstruction

      public boolean isBackgroundByReconstruction()

    • getMedianRadiusMicrons

      public double getMedianRadiusMicrons()

    • getSigmaMicrons

      public double getSigmaMicrons()

    • getMinAreaMicrons

      public double getMinAreaMicrons()

    • getMaxAreaMicrons

      public double getMaxAreaMicrons()

    • getThreshold

      public double getThreshold()

    • isWatershedPostProcess

      public boolean isWatershedPostProcess()

    • getCellExpansionMicrons

      public double getCellExpansionMicrons()

    • isIncludeNuclei

      public boolean isIncludeNuclei()

    • isSmoothBoundaries

      public boolean isSmoothBoundaries()

    • isMakeMeasurements

      public boolean isMakeMeasurements()

    • setDetectionImage

      public void setDetectionImage(String detectionImage)

    • setRequestedPixelSizeMicrons

      public void setRequestedPixelSizeMicrons(double requestedPixelSizeMicrons)

    • setBackgroundRadiusMicrons

      public void setBackgroundRadiusMicrons(double backgroundRadiusMicrons)

    • setBackgroundByReconstruction

      public void setBackgroundByReconstruction(boolean backgroundByReconstruction)

    • setMedianRadiusMicrons

      public void setMedianRadiusMicrons(double medianRadiusMicrons)

    • setSigmaMicrons

      public void setSigmaMicrons(double sigmaMicrons)

    • setMinAreaMicrons

      public void setMinAreaMicrons(double minAreaMicrons)

    • setMaxAreaMicrons

      public void setMaxAreaMicrons(double maxAreaMicrons)

    • setThreshold

      public void setThreshold(double threshold)

    • setWatershedPostProcess

      public void setWatershedPostProcess(boolean watershedPostProcess)

    • setCellExpansionMicrons

      public void setCellExpansionMicrons(double cellExpansionMicrons)

    • setIncludeNuclei

      public void setIncludeNuclei(boolean includeNuclei)

    • setSmoothBoundaries

      public void setSmoothBoundaries(boolean smoothBoundaries)

    • setMakeMeasurements

      public void setMakeMeasurements(boolean makeMeasurements)

    • getHistogramThreshold

      public AutoThresholdParmameters getHistogramThreshold()

    • setHistogramThreshold

      public void setHistogramThreshold(AutoThresholdParmameters histogramThreshold)