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java.lang.Objectevaluation.comparison.BroheeSimilarity
public class BroheeSimilarity
Contains similarity comparison results of two complex sets after
Brohée, S. & van Helden, J.
Evaluation of clustering algorithms for protein-protein interaction networks.
BMC Bioinformatics, 2006, 7, 488
Pubmed: 17087821
This measure is assymetrical and provides a similarity measure of a given candidate complex set with respect to a reference complex set.
The sensitivity describes how much of the reference complex sets are also contained in the candidate complex set, where as the positive predictive value (PPV) is a measure how much of the prediction in the candidate set is correct. The accuracy is then the geometric mean of sensitivity and PPV.
All three measures range between a minimum value of 0.0 and a maximum value of 1.0. Note that for complex sets where proteins occur in multiple complexes it might not be possible for the PPV to reach the maximum of 1.0.
This class is not instantiatable from outside of the package.
Constructor Summary | |
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BroheeSimilarity(float sens,
float PPV)
Creates a new similarity object. |
Method Summary | |
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float |
getAccuracy()
Return the accuracy of the candidate set regarding the reference complex set. |
float |
getPPV()
Returns the positive predictive value (PPV) of the candidate set regarding the reference complex set. |
float |
getSensitivity()
Returns the sensitivity of the candidate complex set regarding the reference complex set. |
String |
toString()
Returns a string representation of the comparison results |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait |
Constructor Detail |
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public BroheeSimilarity(float sens, float PPV)
sens
- sensitivityPPV
- positive predictive valueMethod Detail |
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public float getSensitivity()
public float getPPV()
public float getAccuracy()
public String toString()
toString
in class Object
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