Extrema (Fiji Javadocs 0-SNAPSHOT API)

java.lang.Object
- sc.fiji.timelapse.Extrema

```
public class Extrema
extends Object
```

Field Summary

Fields
Modifier and Type	Field and Description
`protected int`	`extremaCount`
`protected double[]`	`intensities`
`protected int`	`left`
`protected double`	`max`
`protected double`	`min`
`protected int`	`right`
`protected double[]`	`series`
`protected double`	`tolerance`
`protected double[]`	`x`

Constructor Summary

Constructors
Constructor and Description
`Extrema(double[] series, double tolerance, boolean findMaxima)` Determine the extrema of a given series.
`Extrema(double[] series, int window, double minimalSlope, boolean findMaxima)` Determine the extrema of a given series.

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method and Description
`protected void`	`addFittedMinimum(int middle)` Fit a parabola to the interval [left;right].
`protected void`	`addMinimum(int middle)`
`double[]`	`getIntensities()`
`protected void`	`getMinAndMax()`
`protected boolean`	`getMinimumInterval(int index)`
`Plot`	`getPlot()`
`protected double`	`getSlope(int from, int to)`
`double[]`	`getX()`
`protected void`	`negate(double[] series)`
`protected double[]`	`shorten(double[] array, int length)`

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

- Field Detail
  - tolerance
```
protected double tolerance
```
  - series
```
protected double[] series
```
  - extremaCount
```
protected int extremaCount
```
  - min
```
protected double min
```
  - max
```
protected double max
```
  - left
```
protected int left
```
  - right
```
protected int right
```
  - x
```
protected double[] x
```
  - intensities
```
protected double[] intensities
```
- Constructor Detail
  - Extrema
```
public Extrema(double[] series,
               double tolerance,
               boolean findMaxima)
```
    Determine the extrema of a given series.
    
    Parameters:
    
    series - contains the data to process
    
    tolerance - When determining the x and y of a minimum, fit a parabola in the intervals around local extrema where the intensity differs less than tolerance * (max - min)
    
    findMaxima - tells whether we want to find maxima instead of minima
  - Extrema
```
public Extrema(double[] series,
               int window,
               double minimalSlope,
               boolean findMaxima)
```
    Determine the extrema of a given series. The extrema are determined by linear regression in a window left and right of the points and keeping those with at least the regressed slope on either side.
    
    Parameters:
    
    series - contains the data to process
    
    window - window to look in on either side of candidates
    
    minimalSlope - a candidate is only an extremum if the slope exceeds minimalSlope on either side
    
    findMaxima - true for maxima, false for minima
- Method Detail
  - getSlope
```
protected double getSlope(int from,
                          int to)
```
  - negate
```
protected void negate(double[] series)
```
  - getX
```
public double[] getX()
```
  - getIntensities
```
public double[] getIntensities()
```
  - getMinimumInterval
```
protected boolean getMinimumInterval(int index)
```
  - addMinimum
```
protected void addMinimum(int middle)
```
  - addFittedMinimum
```
protected void addFittedMinimum(int middle)
```
    Fit a parabola to the interval [left;right].
  - shorten
```
protected double[] shorten(double[] array,
                           int length)
```
  - getMinAndMax
```
protected void getMinAndMax()
```
  - getPlot
```
public Plot getPlot()
```

Class Extrema

Field Summary

Constructor Summary

Method Summary

Methods inherited from class java.lang.Object

Field Detail

tolerance

series

extremaCount

min

max

left

right

x

intensities

Constructor Detail

Extrema

Extrema

Method Detail

getSlope

negate

getX

getIntensities

getMinimumInterval

addMinimum

addFittedMinimum

shorten

getMinAndMax

getPlot