Package qupath.ext.braian

Class ImageChannelTools

java.lang.Object
qupath.ext.braian.ImageChannelTools
public class ImageChannelTools extends Object

  • Constructor Details

    • ImageChannelTools

      public ImageChannelTools(String name, qupath.lib.images.servers.ImageServer<BufferedImage> server)
      Creates an ImageChannelTools from the given channel name and ImageServer
      Parameters:
      name - name of the channel
      server - image server to which the channel is referring to

  • Method Details

    • getnChannel

      public int getnChannel()
      Returns:
      index of the corresponding channel used by QuPath

    • getHistogram

      public ChannelHistogram getHistogram(int resolutionLevel) throws IOException
      Computes the ChannelHistogram of the current channel at the given resolution.
      Parameters:
      resolutionLevel - Resolution level, If it's bigger than ImageServer.nResolutions()-1, than it uses the igven n-th resolution.
      Returns:
      the histogram of the given channel
      Throws:
      IOException - when it fails to read the image file to build the histogram
      See Also:

    • getImageProcessor

      public ij.process.ImageProcessor getImageProcessor(int resolutionLevel) throws IOException
      Retrieves the corresponding ImageProcessor of the current channel at the given resolution.
      Parameters:
      resolutionLevel - Resolution level, If it's bigger than ImageServer.nResolutions()-1, than it uses the given n-th resolution.
      Returns:
      the image channel as processed by ImageJ at the given resolution
      Throws:
      IOException - when it fails to read the image file
      See Also:

    • getChannelStats

      @Deprecated(since="1.0.4") public ij.process.ImageStatistics getChannelStats(int resolutionLevel) throws IOException
      Deprecated.
      Computes the ImageStatistics of the current channel at the given resolution.
      Parameters:
      resolutionLevel - Resolution level, If it's bigger than ImageServer.nResolutions()-1, than it uses the given n-th resolution.
      Returns:
      the statistics of the channel computed by ImageJ at the given resolution
      Throws:
      IOException - when it fails to read the image file
      See Also:

    • getName

      public String getName()
      Returns:
      the name of the associated image channel

    • getDetections

      public ChannelDetections getDetections(qupath.lib.objects.hierarchy.PathObjectHierarchy hierarchy) throws NoCellContainersFoundException
      returns an instance of ChannelDetections, if existing in the current hierarchy
      Parameters:
      hierarchy - where to find the detections
      Throws:
      NoCellContainersFoundException - if no pre-computed detection was found in the given hierarchy
      See Also: