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EVA summary for category sec (Pairwise)

Contents

About secondary structure prediction methods evaluated

Method NprotNweekDetailed results for method
ALL 432 88 method/index.html
APSSP   00method/apssp.html
APSSP2   35073method/apssp2.html
JPred   16729method/jpred.html
JUFO   12735method/jufo.html
PHD   36174method/phd.html
PHDpsi   35874method/phdpsi.html
PROF_king   35981method/prof_king.html
PROFsec   36174method/profsec.html
Prospect   27570method/prospect.html
PSIpred   35881method/psipred.html
PSSP   11method/pssp.html
SABLE   7118method/sable.html
SABLE2   141method/sable2.html
SAM-T99sec   31381method/samt99_sec.html
SCRATCH (SSpro3)   15036method/scratch.html
SSpro1   11method/sspro1.html
SSpro2   25748method/sspro2.html
  31method/sspro4.html
  63method/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-T99secSABLE2PROFsecSCRATCH (SSpro3)SABLESSpro1SSpro2APSSP2JPredPHDpsiPROF_kingPHDProspectAPSSPPSSPJUFO
1. PSIpred -0.01 ± 8.01 [ 261] 3.69 ± 5.92 [ 14] 0.91 ± 8.87 [ 311] 0.91 ± 7.81 [ 108] 2.39 ± 7.29 [ 56]? 1.30 ± 7.93 [ 232] 1.36 ± 5.70 [ 301] 2.95 ± 7.68 [ 151] 3.35 ± 9.87 [ 308] 3.53 ± 9.25 [ 306] 4.97 ± 10.77 [ 311] 3.96 ± 11.37 [ 231] 7.45 ± 10.44 [ 210]? 7.14 ± 10.73 [ 92]
2. SAM-T99sec 0.01 ± 8.01 [ 261] -2.04 ± 11.46 [ 14] 0.53 ± 8.62 [ 262] 0.78 ± 7.44 [ 135] 1.65 ± 8.42 [ 68]? 0.89 ± 8.04 [ 161] 1.30 ± 8.52 [ 242] 2.04 ± 7.87 [ 108] 2.59 ± 9.07 [ 260] 3.46 ± 9.09 [ 262] 4.04 ± 10.22 [ 262] 4.64 ± 10.70 [ 196] 6.72 ± 10.70 [ 146]? 7.14 ± 10.05 [ 116]
3. SABLE2 -3.69 ± 5.92 [ 14] 2.04 ± 11.46 [ 14] 0.24 ± 17.04 [ 14] 1.14 ± 13.89 [ 14] 3.80 ± 8.36 [ 14]?? 4.76 ± 12.00 [ 14]? 4.69 ± 20.18 [ 14] 11.56 ± 23.45 [ 13] 4.69 ± 20.18 [ 14] 16.28 ± 23.33 [ 13]?? 10.30 ± 17.09 [ 13]
4. PROFsec -0.91 ± 8.87 [ 311] -0.53 ± 8.62 [ 262] -0.24 ± 17.04 [ 14] -0.95 ± 9.57 [ 150] -0.60 ± 11.02 [ 68]? 1.05 ± 7.26 [ 194] 0.60 ± 9.65 [ 288] 3.10 ± 7.79 [ 129] 2.20 ± 6.74 [ 357] 2.54 ± 8.87 [ 306] 3.61 ± 7.88 [ 360] 3.14 ± 11.40 [ 230] 6.90 ± 10.02 [ 176]? 4.85 ± 10.88 [ 126]
5. SCRATCH (SSpro3) -0.91 ± 7.81 [ 108] -0.78 ± 7.44 [ 135] -1.14 ± 13.89 [ 14] 0.95 ± 9.57 [ 150] 0.89 ± 9.41 [ 60]?? 0.84 ± 7.76 [ 101]? 2.87 ± 10.37 [ 149] 3.68 ± 9.18 [ 140] 3.32 ± 10.83 [ 149] 4.77 ± 13.46 [ 111]?? 6.10 ± 10.41 [ 118]
6. SABLE -2.39 ± 7.29 [ 56] -1.65 ± 8.42 [ 68] -3.80 ± 8.36 [ 14] 0.60 ± 11.02 [ 68] -0.89 ± 9.41 [ 60]?? 0.26 ± 9.67 [ 61]? 2.44 ± 11.85 [ 67] 5.58 ± 13.59 [ 62] 3.28 ± 12.34 [ 68] 5.42 ± 13.64 [ 50]?? 7.22 ± 11.85 [ 63]
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 -1.36 ± 5.70 [ 301] -1.30 ± 8.52 [ 242] -4.76 ± 12.00 [ 14] -0.60 ± 9.65 [ 288] -0.84 ± 7.76 [ 101] -0.26 ± 9.67 [ 61]? 0.02 ± 7.22 [ 231] 1.85 ± 6.86 [ 144] 1.71 ± 10.41 [ 285] 2.15 ± 9.03 [ 299] 2.90 ± 11.24 [ 288] 3.53 ± 11.98 [ 235] 6.21 ± 8.97 [ 210]? 5.80 ± 10.21 [ 89]
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 -3.35 ± 9.87 [ 308] -2.59 ± 9.07 [ 260] -4.69 ± 20.18 [ 14] -2.20 ± 6.74 [ 357] -2.87 ± 10.37 [ 149] -2.44 ± 11.85 [ 67]? -1.40 ± 7.75 [ 192] -1.71 ± 10.41 [ 285] 0.81 ± 8.05 [ 128] 0.28 ± 9.04 [ 303] 1.32 ± 5.18 [ 357] 0.99 ± 11.47 [ 227] 4.33 ± 9.89 [ 174]? 2.91 ± 9.22 [ 125]
12. PROF_king -3.53 ± 9.25 [ 306] -3.46 ± 9.09 [ 262]-11.56 ± 23.45 [ 13] -2.54 ± 8.87 [ 306] -3.68 ± 9.18 [ 140] -5.58 ± 13.59 [ 62]? -1.11 ± 7.19 [ 204] -2.15 ± 9.03 [ 299] 0.56 ± 7.08 [ 123] -0.28 ± 9.04 [ 303] 0.78 ± 9.65 [ 306] 0.46 ± 10.90 [ 253] 5.61 ± 9.21 [ 181]? 1.69 ± 9.74 [ 120]
13. PHD -4.97 ± 10.77 [ 311] -4.04 ± 10.22 [ 262] -4.69 ± 20.18 [ 14] -3.61 ± 7.88 [ 360] -3.32 ± 10.83 [ 149] -3.28 ± 12.34 [ 68]? -3.61 ± 9.30 [ 194] -2.90 ± 11.24 [ 288] -2.68 ± 9.89 [ 129] -1.32 ± 5.18 [ 357] -0.78 ± 9.65 [ 306] -0.14 ± 12.26 [ 231] 1.94 ± 9.91 [ 176]? 2.59 ± 9.41 [ 126]
14. Prospect -3.96 ± 11.37 [ 231] -4.64 ± 10.70 [ 196]-16.28 ± 23.33 [ 13] -3.14 ± 11.40 [ 230] -4.77 ± 13.46 [ 111] -5.42 ± 13.64 [ 50]? -1.94 ± 8.98 [ 150] -3.53 ± 11.98 [ 235] -1.77 ± 9.86 [ 88] -0.99 ± 11.47 [ 227] -0.46 ± 10.90 [ 253] 0.14 ± 12.26 [ 231] 3.98 ± 12.03 [ 132]? 0.76 ± 12.35 [ 109]
15. 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]??
16. PSSP????????????????
17. JUFO -7.14 ± 10.73 [ 92] -7.14 ± 10.05 [ 116]-10.30 ± 17.09 [ 13] -4.85 ± 10.88 [ 126] -6.10 ± 10.41 [ 118] -7.22 ± 11.85 [ 63]?? -5.80 ± 10.21 [ 89]? -2.91 ± 9.22 [ 125] -1.69 ± 9.74 [ 120] -2.59 ± 9.41 [ 126] -0.76 ± 12.35 [ 109]??

Analysis of sov score for Secondary Structure Prediction:
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