SpotContrastAndSNRAnalyzer (Fiji Javadocs 0-SNAPSHOT API)

Skip navigation links

All Classes

Summary:
Nested |
Field |
Constr |
Method

Detail:
Field |
Constr |
Method

java.lang.Object
- fiji.plugin.trackmate.features.spot.AbstractSpotFeatureAnalyzer<T>
- - fiji.plugin.trackmate.features.spot.SpotContrastAndSNRAnalyzer<T>

All Implemented Interfaces:

SpotAnalyzer<T>, Benchmark, MultiThreaded
```
public class SpotContrastAndSNRAnalyzer<T extends RealType<T>>
extends AbstractSpotFeatureAnalyzer<T>
```
This FeatureAnalyzer computes both the Michelson contrast and the SNR for each spot:
The contrast is defined as C = (I_in - I_out) / (I_in + I_out) where I_in is the mean intensity inside the spot volume (computed from its Spot.RADIUS feature), and I_out is the mean intensity in a ring ranging from its radius to twice its radius.
The spots's SNR is computed a (I_in - I_out) / std_in where std_in is the standard deviation computed within the spot.
Important: this analyzer relies on some results provided by the SpotIntensityMultiCAnalyzer analyzer. Thus, it must be run after it.

Author:

Jean-Yves Tinevez, 2011 - 2012. Revised December 2020.

- Nested Class Summary
  - Nested classes/interfaces inherited from interface fiji.plugin.trackmate.features.spot.SpotAnalyzer
    SpotAnalyzer.DummySpotAnalyzer<T extends RealType<T> & NativeType<T>>
- Field Summary
  
  Fields
  Modifier and Type Field and Description
  
  protected static double RAD_PERCENTAGE
  - Fields inherited from class fiji.plugin.trackmate.features.spot.AbstractSpotFeatureAnalyzer
    errorMessage
  - Fields inherited from interface fiji.plugin.trackmate.features.spot.SpotAnalyzer
    DUMMY_ANALYZER
- Constructor Summary
  
  Constructors
  Constructor and Description
  
  SpotContrastAndSNRAnalyzer(ImgPlus<T> img, int channel)
  Instantiates an analyzer for contrast and SNR.
- Method Summary
  
  All Methods Instance Methods Concrete Methods
  Modifier and Type Method and Description
  
  void process(Spot spot)
  - Methods inherited from class fiji.plugin.trackmate.features.spot.AbstractSpotFeatureAnalyzer
    getNumThreads, getProcessingTime, process, setNumThreads, setNumThreads
  - Methods inherited from class java.lang.Object
    clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
  - Methods inherited from interface fiji.plugin.trackmate.features.spot.SpotAnalyzer
    dummyAnalyzer

- Field Detail
  - RAD_PERCENTAGE
```
protected static final double RAD_PERCENTAGE
```
    See Also:
    
    Constant Field Values
- Constructor Detail
  - SpotContrastAndSNRAnalyzer
```
public SpotContrastAndSNRAnalyzer(ImgPlus<T> img,
                                  int channel)
```
    Instantiates an analyzer for contrast and SNR.
    
    Parameters:
    
    img - the 2D or 3D image of the desired time-point and channel to operate on,
    
    channel - the channel to operate on.
- Method Detail
  - process
```
public final void process(Spot spot)
```
    Specified by:
    
    process in class AbstractSpotFeatureAnalyzer<T extends RealType<T>>

Skip navigation links

All Classes

Summary:
Nested |
Field |
Constr |
Method

Detail:
Field |
Constr |
Method

Copyright © 2015–2021 Fiji. All rights reserved.