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Table 4 Statistical parameters used to assess the prediction performance of the ILP method

From: A comprehensive study of small non-frameshift insertions/deletions in proteins and prediction of their phenotypic effects by a machine learning method (KD4i)

 

Real

 
  

Positive

Negative

 

Prediction

Positive

Tp

Fp

Precision Tp Tp + Fp

Negative

Fn

Tn

NPV Tn Tn + Fn

  

Sensitivity Tp Tp + Fn

Specificity Tn Tn + Fp

MCC Tp * Tn − Fp * Fn Tp + Fp Tp + Fn Tn + Fp Tp + Fn

  

Accuracy: Tp + Tn Tp + Tn + Fp + Fn

  1. T=True, F=False, p=Positive, n=Negative, NPV=Negative predictive value, MCC=Matthews correlation coefficient.