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EVA summary for category sec (Pairwise)

Contents

About secondary structure prediction methods evaluated

Method NprotNweekDetailed results for method
ALL 444 92 method/index.html
APSSP   00method/apssp.html
APSSP2   36277method/apssp2.html
JPred   16729method/jpred.html
JUFO   13338method/jufo.html
PHD   37378method/phd.html
PHDpsi   37078method/phdpsi.html
PROF_king   37185method/prof_king.html
PROFsec   37378method/profsec.html
Prospect   28273method/prospect.html
PSIpred   37085method/psipred.html
PSSP   11method/pssp.html
SABLE   8322method/sable.html
SABLE2   265method/sable2.html
SAM-T99sec   32585method/samt99_sec.html
SCRATCH (SSpro3)   16240method/scratch.html
SSpro1   11method/sspro1.html
SSpro2   25748method/sspro2.html
SSpro4   155method/sspro4.html
yaspin   369method/yaspin.html

TABLES

DISCLAIMER Any final ranking list will be frustrated in the sense that method i assessed to be better than method j in the direct pairwise comparison may be positioned worse than method j in the final ranking because of the impact of the pairwise comparisons with other methods, based on different sets of common models.

 


Comparison of secondary structure prediction methods (pairwise)


Analysis of Q3 score for Secondary Structure Prediction:
PSIpredSAM-T99secPROFsecSABLE2SCRATCH (SSpro3)SABLESSpro1SSpro2APSSP2JPredPHDpsiPROF_kingPHDProspectPSSPAPSSPJUFO
1. PSIpred 0.08 ± 7.93 [ 273] 0.97 ± 8.87 [ 323] 4.24 ± 4.89 [ 26] 1.22 ± 7.82 [ 120] 2.51 ± 7.44 [ 68]? 1.30 ± 7.93 [ 232] 1.42 ± 5.72 [ 313] 2.95 ± 7.68 [ 151] 3.45 ± 9.75 [ 320] 3.64 ± 9.24 [ 318] 5.01 ± 10.61 [ 323] 4.20 ± 11.46 [ 238]? 7.45 ± 10.44 [ 210] 7.26 ± 10.49 [ 98]
2. SAM-T99sec -0.08 ± 7.93 [ 273] 0.53 ± 8.63 [ 274] 0.31 ± 9.56 [ 26] 0.89 ± 7.23 [ 147] 1.59 ± 8.05 [ 80]? 0.89 ± 8.04 [ 161] 1.30 ± 8.40 [ 254] 2.04 ± 7.87 [ 108] 2.66 ± 8.97 [ 272] 3.51 ± 8.99 [ 274] 4.04 ± 10.08 [ 274] 4.75 ± 10.71 [ 203]? 6.72 ± 10.70 [ 146] 7.12 ± 9.83 [ 122]
3. PROFsec -0.97 ± 8.87 [ 323] -0.53 ± 8.63 [ 274] 1.00 ± 13.89 [ 26] -0.76 ± 9.68 [ 162] -0.41 ± 11.11 [ 80]? 1.05 ± 7.26 [ 194] 0.59 ± 9.74 [ 300] 3.10 ± 7.79 [ 129] 2.25 ± 6.74 [ 369] 2.60 ± 9.07 [ 318] 3.61 ± 7.84 [ 372] 3.34 ± 11.59 [ 237]? 6.90 ± 10.02 [ 176] 4.89 ± 10.73 [ 132]
4. SABLE2 -4.24 ± 4.89 [ 26] -0.31 ± 9.56 [ 26] -1.00 ± 13.89 [ 26] 0.22 ± 11.23 [ 26] 1.22 ± 8.45 [ 26]?? 1.67 ± 10.38 [ 26]? 3.06 ± 15.20 [ 26] 6.79 ± 18.57 [ 25] 3.06 ± 15.20 [ 26] 13.04 ± 20.52 [ 20]?? 8.43 ± 14.48 [ 19]
5. SCRATCH (SSpro3) -1.22 ± 7.82 [ 120] -0.89 ± 7.23 [ 147] 0.76 ± 9.68 [ 162] -0.22 ± 11.23 [ 26] 0.59 ± 8.89 [ 72]?? 0.63 ± 7.71 [ 113]? 2.80 ± 10.25 [ 161] 3.59 ± 9.01 [ 152] 3.22 ± 10.68 [ 161] 4.71 ± 13.42 [ 118]?? 5.94 ± 10.22 [ 124]
6. SABLE -2.51 ± 7.44 [ 68] -1.59 ± 8.05 [ 80] 0.41 ± 11.11 [ 80] -1.22 ± 8.45 [ 26] -0.59 ± 8.89 [ 72]?? 0.19 ± 9.43 [ 73]? 2.52 ± 11.49 [ 79] 5.23 ± 12.58 [ 74] 3.23 ± 11.92 [ 80] 5.50 ± 13.66 [ 57]?? 7.12 ± 11.38 [ 69]
7. SSpro1????????????????
8. SSpro2 -1.30 ± 7.93 [ 232] -0.89 ± 8.04 [ 161] -1.05 ± 7.26 [ 194]???? -0.02 ± 7.22 [ 231] 1.74 ± 7.35 [ 166] 1.40 ± 7.75 [ 192] 1.11 ± 7.19 [ 204] 3.61 ± 9.30 [ 194] 1.94 ± 8.98 [ 150]? 5.95 ± 9.61 [ 233]?
9. APSSP2 -1.42 ± 5.72 [ 313] -1.30 ± 8.40 [ 254] -0.59 ± 9.74 [ 300] -1.67 ± 10.38 [ 26] -0.63 ± 7.71 [ 113] -0.19 ± 9.43 [ 73]? 0.02 ± 7.22 [ 231] 1.85 ± 6.86 [ 144] 1.76 ± 10.35 [ 297] 2.20 ± 9.01 [ 311] 2.91 ± 11.15 [ 300] 3.70 ± 11.97 [ 242]? 6.21 ± 8.97 [ 210] 5.94 ± 9.99 [ 95]
10. JPred -2.95 ± 7.68 [ 151] -2.04 ± 7.87 [ 108] -3.10 ± 7.79 [ 129]???? -1.74 ± 7.35 [ 166] -1.85 ± 6.86 [ 144] -0.81 ± 8.05 [ 128] -0.56 ± 7.08 [ 123] 2.68 ± 9.89 [ 129] 1.77 ± 9.86 [ 88]? 4.29 ± 8.18 [ 165]?
11. PHDpsi -3.45 ± 9.75 [ 320] -2.66 ± 8.97 [ 272] -2.25 ± 6.74 [ 369] -3.06 ± 15.20 [ 26] -2.80 ± 10.25 [ 161] -2.52 ± 11.49 [ 79]? -1.40 ± 7.75 [ 192] -1.76 ± 10.35 [ 297] 0.81 ± 8.05 [ 128] 0.29 ± 9.09 [ 315] 1.28 ± 5.10 [ 369] 1.16 ± 11.55 [ 234]? 4.33 ± 9.89 [ 174] 2.95 ± 9.07 [ 131]
12. PROF_king -3.64 ± 9.24 [ 318] -3.51 ± 8.99 [ 274] -2.60 ± 9.07 [ 318] -6.79 ± 18.57 [ 25] -3.59 ± 9.01 [ 152] -5.23 ± 12.58 [ 74]? -1.11 ± 7.19 [ 204] -2.20 ± 9.01 [ 311] 0.56 ± 7.08 [ 123] -0.29 ± 9.09 [ 315] 0.73 ± 9.67 [ 318] 0.50 ± 10.94 [ 260]? 5.61 ± 9.21 [ 181] 1.75 ± 9.57 [ 126]
13. PHD -5.01 ± 10.61 [ 323] -4.04 ± 10.08 [ 274] -3.61 ± 7.84 [ 372] -3.06 ± 15.20 [ 26] -3.22 ± 10.68 [ 161] -3.23 ± 11.92 [ 80]? -3.61 ± 9.30 [ 194] -2.91 ± 11.15 [ 300] -2.68 ± 9.89 [ 129] -1.28 ± 5.10 [ 369] -0.73 ± 9.67 [ 318] 0.06 ± 12.32 [ 238]? 1.94 ± 9.91 [ 176] 2.64 ± 9.25 [ 132]
14. Prospect -4.20 ± 11.46 [ 238] -4.75 ± 10.71 [ 203] -3.34 ± 11.59 [ 237]-13.04 ± 20.52 [ 20] -4.71 ± 13.42 [ 118] -5.50 ± 13.66 [ 57]? -1.94 ± 8.98 [ 150] -3.70 ± 11.97 [ 242] -1.77 ± 9.86 [ 88] -1.16 ± 11.55 [ 234] -0.50 ± 10.94 [ 260] -0.06 ± 12.32 [ 238]? 3.98 ± 12.03 [ 132] 0.82 ± 12.23 [ 114]
15. PSSP????????????????
16. APSSP -7.45 ± 10.44 [ 210] -6.72 ± 10.70 [ 146] -6.90 ± 10.02 [ 176]???? -5.95 ± 9.61 [ 233] -6.21 ± 8.97 [ 210] -4.29 ± 8.18 [ 165] -4.33 ± 9.89 [ 174] -5.61 ± 9.21 [ 181] -1.94 ± 9.91 [ 176] -3.98 ± 12.03 [ 132]??
17. JUFO -7.26 ± 10.49 [ 98] -7.12 ± 9.83 [ 122] -4.89 ± 10.73 [ 132] -8.43 ± 14.48 [ 19] -5.94 ± 10.22 [ 124] -7.12 ± 11.38 [ 69]?? -5.94 ± 9.99 [ 95]? -2.95 ± 9.07 [ 131] -1.75 ± 9.57 [ 126] -2.64 ± 9.25 [ 132] -0.82 ± 12.23 [ 114]??

Analysis of sov score for Secondary Structure Prediction:
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