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Table 1 System performance measures

From: Identification of effector-like proteins in Trichoderma spp. and role of a hydrophobin in the plant-fungus interaction and mycoparasitism

Program

Positives

Negatives

Program performance evaluation

TP

FP

TN

FN

Rc

Pr

Acc

MCC

SignaLPv4-Da

74

2

398

4

0.949

0.995

0.987

0.954

SignalPv3-HMM-S/TMHMMv2

76

9

373

20

0.792

0.976

0.939

0.805

Phobius

74

8

392

4

0.949

0.980

0.975

0.910

ProtComp-v9

59

6

391

22

0.728

0.985

0.941

0.781

WolfPsort

56

7

392

23

0.709

0.982

0.937

0.759

SignalPv3-NN-D

76

34

366

2

0.974

0.915

0.925

0.781

SignalPv3-HMM-S

76

32

368

2

0.974

0.920

0.929

0.790

SignalPv3-NN-D/SignalPv3-HMM-S

75

15

370

18

0.806

0.961

0.931

0.777

WolfPsort/SignalPv3-NN-D

56

32

367

23

0.709

0.920

0.885

0.602

WolfPsort/SignalPv3-HMM-S

56

23

377

22

0.718

0.943

0.906

0.657

WolfPsort/Phobius

55

12

387

24

0.696

0.970

0.925

0.713

  1. Performance was measured based on the program’s ability to correctly discriminate extracellular proteins from non-extracellular proteins
  2. Abbreviations: TP true positive prediction, FP false positive prediction, TN true negative prediction, FN false negative prediction, Rc recall, Pr precision, Acc accuracy, MCC Mathew’s Correlation Coefficient
  3. aMost accurate method to identify extracellular proteins