fiji.plugin.trackmate.features.edges

Interface EdgeAnalyzer

All Superinterfaces:

Benchmark, FeatureAnalyzer, MultiThreaded, SciJavaPlugin, TrackMateModule

All Known Implementing Classes:

AbstractEdgeAnalyzer, DirectionalChangeAnalyzer, EdgeSpeedAnalyzer, EdgeTargetAnalyzer, EdgeTimeLocationAnalyzer, ManualEdgeColorAnalyzer

public interface EdgeAnalyzer
extends Benchmark, FeatureAnalyzer, MultiThreaded

Interface for analyzers that can compute scalar numerical features for an edge of a TrackMate model. An edge, or a link, is the single link that exists between two spots after tracking.

Author:

Jean-Yves Tinevez <jeanyves.tinevez@gmail.com>

Method Summary

Modifier and Type	Method and Description
boolean	isLocal() Returns true if this analyzer is a local analyzer.
void	process(Collection<org.jgrapht.graph.DefaultWeightedEdge> edges, Model model) Scores a collection of link between two spots.

Methods inherited from interface net.imglib2.algorithm.Benchmark

getProcessingTime

Methods inherited from interface fiji.plugin.trackmate.features.FeatureAnalyzer

getFeatureDimensions, getFeatureNames, getFeatures, getFeatureShortNames, getIsIntFeature, isManualFeature

Methods inherited from interface fiji.plugin.trackmate.TrackMateModule

forbidMultithreading, getIcon, getInfoText, getKey, getName

Methods inherited from interface net.imglib2.algorithm.MultiThreaded

getNumThreads, setNumThreads, setNumThreads

Method Detail

process

void process(Collection<org.jgrapht.graph.DefaultWeightedEdge> edges,
             Model model)

Scores a collection of link between two spots. The results must be stored in the FeatureModel.

Note: ideally concrete implementation should work in a multi-threaded fashion for performance reason, when possible.

Parameters:

edges - the collection of edges whose features are to be calculated.

model - the Model they belong to.

isLocal

boolean isLocal()

Returns true if this analyzer is a local analyzer. That is: a modification that affects only one edge requires the edge features to be re-calculated only for this edge. If false, any model modification involving an edge will trigger a recalculation over the whole track this edge belong to.

Example of local edge feature: the edge length (distance between the two spots). This one does not depend on other edge values.

Example of non-local edge feature: the local curvature of the trajectory, which depends on the neighbor edges.