Class LevelPerObjectNeighbors

Object
AnchorBean<ChannelProvider>
InitializableBean<ChannelProvider, ImageInitialization>
ImageBean<ChannelProvider>
BeanProviderAsStackBase<ChannelProvider, Channel>
ChannelProvider
ChannelProviderUnary
LevelPerObjectBase
LevelPerObjectNeighbors
All Implemented Interfaces:
Provider<Channel>, ProviderAsStack
public class LevelPerObjectNeighbors extends LevelPerObjectBase
Calculates a threshold-level for each object collectively based on other objects

A neighborhood-graph is compiled of objects that touch each other. The threshold for each objects is determined by the object itself and neigbors e.g. neighborhoodDistance==1 are all the immediate neighbors

  • Constructor Summary

    Constructors
    Constructor
    Description
    LevelPerObjectNeighbors()
     

  • Method Summary

    Modifier and Type
    Method
    Description
    int
    getDistance()
    How many neighbors to include by distance (distance==1 implies all directly touching neighbors, distance==2 implies those touching the directly touching etc.)
    void
    setDistance(int distance)
    How many neighbors to include by distance (distance==1 implies all directly touching neighbors, distance==2 implies those touching the directly touching etc.)
    protected void
    writeLevelsForObjects(Channel channelIntensity, ObjectCollection objects, Channel output)
    Creates a channel with the levels for a set of objects.

    Methods inherited from class org.anchoranalysis.plugin.image.bean.channel.provider.object.LevelPerObjectBase

    createFromChannel, getCalculateLevel, getObjects, setCalculateLevel, setObjects

    Methods inherited from class org.anchoranalysis.image.bean.provider.ChannelProviderUnary

    get, getChannel, setChannel

    Methods inherited from class org.anchoranalysis.image.bean.provider.ChannelProvider

    getAsStack

    Methods inherited from class org.anchoranalysis.bean.initializable.InitializableBean

    getInitialization, getLogger, getPropertyInitializer, initialize, initializeRecursive, initRecursiveWithInitializer, isInitialized, onInitialization

    Methods inherited from class org.anchoranalysis.bean.AnchorBean

    checkMisconfigured, describeBean, describeChildren, duplicateBean, fields, findFieldsOfClass, getBeanName, getLocalPath, localise, toString

    Methods inherited from class java.lang.Object

    clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

  • Constructor Details

    • LevelPerObjectNeighbors

      public LevelPerObjectNeighbors()

  • Method Details

    • writeLevelsForObjects

      protected void writeLevelsForObjects(Channel channelIntensity, ObjectCollection objects, Channel output) throws ProvisionFailedException
      Description copied from class: LevelPerObjectBase
      Creates a channel with the levels for a set of objects.
      Specified by:
      writeLevelsForObjects in class LevelPerObjectBase
      Parameters:
      channelIntensity - the channel whose intensity is passed to calculateLevel as a histogram variously for particular objects
      objects - the ObjectCollection for which levels are calculated
      output - the channel where the calculated-levels are written (for each object)
      Throws:
      ProvisionFailedException - if there's an error during the level calculation or writing process

    • getDistance

      public int getDistance()
      How many neighbors to include by distance (distance==1 implies all directly touching neighbors, distance==2 implies those touching the directly touching etc.)

    • setDistance

      public void setDistance(int distance)
      How many neighbors to include by distance (distance==1 implies all directly touching neighbors, distance==2 implies those touching the directly touching etc.)