io.github.msdk.featuredetection.adap3d.algorithms

Class BiGaussianSimilarityTest

java.lang.Object

io.github.msdk.featuredetection.adap3d.algorithms.BiGaussianSimilarityTest

public class BiGaussianSimilarityTest
extends Object

BiGaussianSimilarityTest class is used for determining true or false peak by comparing BiGaussian values with intensity values of given m/z and left and right bounds (variables leftBound and rightBound).

Constructor Summary

Constructors

Constructor and Description
BiGaussianSimilarityTest()

Method Summary

Modifier and Type	Method and Description
boolean	execute(List<SliceSparseMatrix.Triplet> slice, int leftBound, int rightBound, int roundedMZ, double biGaussianSimilarityThreshold) execute method is used for testing a peak with given m/z-value (variable mz) and left and right bounds (variables leftBound and rightBound).

Methods inherited from class java.lang.Object

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

Constructor Detail

BiGaussianSimilarityTest

public BiGaussianSimilarityTest()

Method Detail

execute

public boolean execute(List<SliceSparseMatrix.Triplet> slice,
                       int leftBound,
                       int rightBound,
                       int roundedMZ,
                       double biGaussianSimilarityThreshold)

execute method is used for testing a peak with given m/z-value (variable mz) and left and right bounds (variables leftBound and rightBound). Peak is tested by comparing BiGaussian values with intensity values from slice of sparse matrix.

Parameters:

slice - a List object. This is horizontal slice from sparse matrix of given m/z value.

leftBound - a Integer object. This is lowest scan number from which peak determining starts.

rightBound - a Integer object. This is highest scan number on which peak determining ends.

roundedMZ - a Double object. It's rounded m/z value. Original m/z value multiplied by 10000.

biGaussianSimilarityThreshold - a double.

Returns:

a Peak3DTest.Result object. Result object contains similarity values, lower and upper mz boundaries for adjacent similar peaks.