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Table 2 DomFun ranking analysis based on \(F_{max}\) comparing different evaluation methods

From: Assigning protein function from domain-function associations using DomFun

Ontology

Type

Mode

FF-HyI-Fis

FF-PCC-Sto

FF-Jac-Sto

FF-Sim-Sto

SF-HyI-Fis

SF-PCC-Sto

SF-Jac-Sto

SF-Sim-Sto

GOMF

1

1

2.5

4.5

4.5

2.5

8

6

1

7

GOMF

1

2

2

3.5

3.5

1

8

6

5

7

GOMF

2

1

2

3

4

1

8

6

7

5

GOMF

2

2

2

3

4

1

8

7

6

5

GOBP

1

1

2

3.5

3.5

1

8

6

5

7

GOBP

1

2

2

3.5

3.5

1

8

6

5

7

GOBP

2

1

2

3.5

3.5

1

8

6

5

7

GOBP

2

2

2

3

4

1

8

6

5

7

GOCC

1

1

3

3

3

1

8

7

5

6

GOCC

1

2

2

3.5

3.5

1

8

6

5

7

GOCC

2

1

2

3.5

3.5

1

8

6

5

7

GOCC

2

2

2

3.5

3.5

1

8

6

5

7

  1. Type 1: no knowledge, type 2: limited knowledge. Mode 1: Full, mode 2: partial. FF FunFams, SF superfamilies. Jac Jaccard, Sim Simpson, PCC Pearson correlation coefficient, HyI hypergeometric, Sto Stouffer, Fis Fisher