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EVA summary for category sec (Pairwise)

Contents

About secondary structure prediction methods evaluated

Method NprotNweekDetailed results for method
ALL 405 83 method/index.html
APSSP   00method/apssp.html
APSSP2   32368method/apssp2.html
JPred   16729method/jpred.html
JUFO   10130method/jufo.html
PHD   33569method/phd.html
PHDpsi   33269method/phdpsi.html
PROF_king   33376method/prof_king.html
PROFsec   33569method/profsec.html
Prospect   25166method/prospect.html
PSIpred   33176method/psipred.html
PSSP   11method/pssp.html
SABLE   4413method/sable.html
SAM-T99sec   28676method/samt99_sec.html
SCRATCH (SSpro3)   12632method/scratch.html
SSpro1   11method/sspro1.html
SSpro2   25748method/sspro2.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:
SAM-T99secSABLEPSIpredPROFsecSCRATCH (SSpro3)SSpro1SSpro2APSSP2JPredPHDpsiPROF_kingProspectPHDJUFOPSSPAPSSP
1. SAM-T99sec 0.48 ± 5.18 [ 41] 0.21 ± 7.73 [ 234] 0.60 ± 8.13 [ 236] 0.92 ± 7.23 [ 111]? 0.89 ± 8.04 [ 161] 1.16 ± 8.24 [ 215] 2.04 ± 7.87 [ 108] 2.59 ± 8.22 [ 234] 3.03 ± 8.36 [ 236] 4.06 ± 9.95 [ 172] 4.15 ± 9.60 [ 236] 6.79 ± 9.71 [ 90]? 6.72 ± 10.70 [ 146]
2. SABLE -0.48 ± 5.18 [ 41] 0.20 ± 5.57 [ 29] 3.08 ± 8.00 [ 42] 0.13 ± 8.95 [ 36]?? 1.24 ± 10.40 [ 34]? 4.22 ± 7.90 [ 41] 6.80 ± 11.47 [ 36] 5.13 ± 8.49 [ 26] 5.32 ± 9.26 [ 42] 8.76 ± 12.85 [ 37]??
3. PSIpred -0.21 ± 7.73 [ 234] -0.20 ± 5.57 [ 29] 0.84 ± 8.42 [ 285] 0.44 ± 6.87 [ 84]? 1.30 ± 7.93 [ 232] 1.08 ± 4.97 [ 274] 2.95 ± 7.68 [ 151] 3.21 ± 9.12 [ 282] 3.02 ± 8.00 [ 280] 3.17 ± 9.67 [ 207] 4.94 ± 10.23 [ 285] 6.01 ± 9.87 [ 66]? 7.45 ± 10.44 [ 210]
4. PROFsec -0.60 ± 8.13 [ 236] -3.08 ± 8.00 [ 42] -0.84 ± 8.42 [ 285] -1.15 ± 8.60 [ 126]? 1.05 ± 7.26 [ 194] 0.40 ± 9.02 [ 262] 3.10 ± 7.79 [ 129] 2.15 ± 6.09 [ 332] 2.16 ± 8.17 [ 281] 2.47 ± 10.35 [ 207] 3.61 ± 7.45 [ 335] 4.00 ± 10.50 [ 101]? 6.90 ± 10.02 [ 176]
5. SCRATCH (SSpro3) -0.92 ± 7.23 [ 111] -0.13 ± 8.95 [ 36] -0.44 ± 6.87 [ 84] 1.15 ± 8.60 [ 126]?? 0.61 ± 7.17 [ 77]? 2.86 ± 8.89 [ 125] 3.13 ± 8.50 [ 117] 3.61 ± 12.62 [ 90] 3.32 ± 9.52 [ 126] 5.74 ± 10.42 [ 95]??
6. SSpro1???????????????
7. SSpro2 -0.89 ± 8.04 [ 161]? -1.30 ± 7.93 [ 232] -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] 1.94 ± 8.98 [ 150] 3.61 ± 9.30 [ 194]?? 5.95 ± 9.61 [ 233]
8. APSSP2 -1.16 ± 8.24 [ 215] -1.24 ± 10.40 [ 34] -1.08 ± 4.97 [ 274] -0.40 ± 9.02 [ 262] -0.61 ± 7.17 [ 77]? 0.02 ± 7.22 [ 231] 1.85 ± 6.86 [ 144] 1.81 ± 10.05 [ 259] 1.88 ± 8.44 [ 273] 3.20 ± 11.07 [ 211] 3.12 ± 10.98 [ 262] 5.67 ± 10.49 [ 63]? 6.21 ± 8.97 [ 210]
9. JPred -2.04 ± 7.87 [ 108]? -2.95 ± 7.68 [ 151] -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] 1.77 ± 9.86 [ 88] 2.68 ± 9.89 [ 129]?? 4.29 ± 8.18 [ 165]
10. PHDpsi -2.59 ± 8.22 [ 234] -4.22 ± 7.90 [ 41] -3.21 ± 9.12 [ 282] -2.15 ± 6.09 [ 332] -2.86 ± 8.89 [ 125]? -1.40 ± 7.75 [ 192] -1.81 ± 10.05 [ 259] 0.81 ± 8.05 [ 128] -0.02 ± 8.64 [ 278] 0.41 ± 10.50 [ 204] 1.42 ± 5.36 [ 332] 2.34 ± 8.81 [ 100]? 4.33 ± 9.89 [ 174]
11. PROF_king -3.03 ± 8.36 [ 236] -6.80 ± 11.47 [ 36] -3.02 ± 8.00 [ 280] -2.16 ± 8.17 [ 281] -3.13 ± 8.50 [ 117]? -1.11 ± 7.19 [ 204] -1.88 ± 8.44 [ 273] 0.56 ± 7.08 [ 123] 0.02 ± 8.64 [ 278] 0.52 ± 10.49 [ 230] 1.22 ± 9.23 [ 281] 1.88 ± 9.44 [ 95]? 5.61 ± 9.21 [ 181]
12. Prospect -4.06 ± 9.95 [ 172] -5.13 ± 8.49 [ 26] -3.17 ± 9.67 [ 207] -2.47 ± 10.35 [ 207] -3.61 ± 12.62 [ 90]? -1.94 ± 8.98 [ 150] -3.20 ± 11.07 [ 211] -1.77 ± 9.86 [ 88] -0.41 ± 10.50 [ 204] -0.52 ± 10.49 [ 230] 0.78 ± 11.40 [ 207] 1.10 ± 12.50 [ 85]? 3.98 ± 12.03 [ 132]
13. PHD -4.15 ± 9.60 [ 236] -5.32 ± 9.26 [ 42] -4.94 ± 10.23 [ 285] -3.61 ± 7.45 [ 335] -3.32 ± 9.52 [ 126]? -3.61 ± 9.30 [ 194] -3.12 ± 10.98 [ 262] -2.68 ± 9.89 [ 129] -1.42 ± 5.36 [ 332] -1.22 ± 9.23 [ 281] -0.78 ± 11.40 [ 207] 2.05 ± 9.16 [ 101]? 1.94 ± 9.91 [ 176]
14. JUFO -6.79 ± 9.71 [ 90] -8.76 ± 12.85 [ 37] -6.01 ± 9.87 [ 66] -4.00 ± 10.50 [ 101] -5.74 ± 10.42 [ 95]?? -5.67 ± 10.49 [ 63]? -2.34 ± 8.81 [ 100] -1.88 ± 9.44 [ 95] -1.10 ± 12.50 [ 85] -2.05 ± 9.16 [ 101]??
15. PSSP???????????????
16. APSSP -6.72 ± 10.70 [ 146]? -7.45 ± 10.44 [ 210] -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] -3.98 ± 12.03 [ 132] -1.94 ± 9.91 [ 176]??

Analysis of sov score for Secondary Structure Prediction:
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