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EVA summary for category sec (Pairwise)

Contents

About secondary structure prediction methods evaluated

Method NprotNweekDetailed results for method
ALL 367 74 method/index.html
APSSP   00method/apssp.html
APSSP2   28559method/apssp2.html
JPred   16729method/jpred.html
JUFO   6921method/jufo.html
PHD   29760method/phd.html
PHDpsi   29560method/phdpsi.html
PROF_king   29867method/prof_king.html
PROFsec   29760method/profsec.html
Prospect   22858method/prospect.html
PSIpred   30468method/psipred.html
PSSP   11method/pssp.html
SABLE   135method/sable.html
SAM-T99sec   24968method/samt99_sec.html
SCRATCH (SSpro3)   9423method/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:
PSIpredSAM-T99secSABLEPROFsecSCRATCH (SSpro3)APSSP2SSpro1SSpro2PROF_kingJPredPHDpsiProspectJUFOPHDPSSPAPSSP
1. PSIpred 0.03 ± 7.81 [ 208] -2.69 ± 4.58 [ 8] 0.83 ± 8.39 [ 258] 0.17 ± 5.84 [ 63] 1.01 ± 4.59 [ 247]? 1.30 ± 7.93 [ 232] 2.89 ± 7.57 [ 253] 2.95 ± 7.68 [ 151] 3.35 ± 9.00 [ 256] 2.95 ± 9.12 [ 187] 5.12 ± 8.47 [ 45] 5.17 ± 10.10 [ 258]? 7.45 ± 10.44 [ 210]
2. SAM-T99sec -0.03 ± 7.81 [ 208] -0.39 ± 5.94 [ 11] 0.24 ± 8.27 [ 199] 0.56 ± 6.54 [ 80] 0.77 ± 7.68 [ 178]? 0.89 ± 8.04 [ 161] 2.42 ± 7.60 [ 202] 2.04 ± 7.87 [ 108] 2.36 ± 8.23 [ 198] 3.56 ± 9.64 [ 150] 5.34 ± 8.73 [ 59] 4.08 ± 9.67 [ 199]? 6.72 ± 10.70 [ 146]
3. SABLE 2.69 ± 4.58 [ 8] 0.39 ± 5.94 [ 11] 6.51 ± 10.61 [ 11] -1.40 ± 6.41 [ 11] -2.87 ± 13.41 [ 3]?? 6.78 ± 5.78 [ 8]? 7.78 ± 10.36 [ 11] 6.07 ± 5.80 [ 7] 7.22 ± 16.93 [ 9] 9.29 ± 10.60 [ 11]??
4. PROFsec -0.83 ± 8.39 [ 258] -0.24 ± 8.27 [ 199] -6.51 ± 10.61 [ 11] -1.72 ± 8.15 [ 94] 0.38 ± 8.51 [ 224]? 1.05 ± 7.26 [ 194] 1.87 ± 7.33 [ 246] 3.10 ± 7.79 [ 129] 2.24 ± 6.04 [ 295] 2.39 ± 9.83 [ 184] 2.52 ± 9.16 [ 69] 3.83 ± 7.48 [ 297]? 6.90 ± 10.02 [ 176]
5. SCRATCH (SSpro3) -0.17 ± 5.84 [ 63] -0.56 ± 6.54 [ 80] 1.40 ± 6.41 [ 11] 1.72 ± 8.15 [ 94] 0.20 ± 6.48 [ 45]?? 2.78 ± 7.38 [ 88]? 3.53 ± 8.22 [ 94] 3.41 ± 11.55 [ 72] 4.45 ± 8.57 [ 69] 3.81 ± 8.50 [ 94]??
6. APSSP2 -1.01 ± 4.59 [ 247] -0.77 ± 7.68 [ 178] 2.87 ± 13.41 [ 3] -0.38 ± 8.51 [ 224] -0.20 ± 6.48 [ 45]? 0.02 ± 7.22 [ 231] 1.71 ± 8.34 [ 238] 1.85 ± 6.86 [ 144] 2.04 ± 9.63 [ 222] 3.21 ± 10.88 [ 188] 4.59 ± 6.72 [ 31] 3.42 ± 10.51 [ 224]? 6.21 ± 8.97 [ 210]
7. SSpro1???????????????
8. SSpro2 -1.30 ± 7.93 [ 232] -0.89 ± 8.04 [ 161]? -1.05 ± 7.26 [ 194]? -0.02 ± 7.22 [ 231]? 1.11 ± 7.19 [ 204] 1.74 ± 7.35 [ 166] 1.40 ± 7.75 [ 192] 1.94 ± 8.98 [ 150]? 3.61 ± 9.30 [ 194]? 5.95 ± 9.61 [ 233]
9. PROF_king -2.89 ± 7.57 [ 253] -2.42 ± 7.60 [ 202] -6.78 ± 5.78 [ 8] -1.87 ± 7.33 [ 246] -2.78 ± 7.38 [ 88] -1.71 ± 8.34 [ 238]? -1.11 ± 7.19 [ 204] 0.56 ± 7.08 [ 123] 0.37 ± 7.81 [ 244] 0.54 ± 9.79 [ 207] 1.77 ± 9.37 [ 66] 1.69 ± 8.46 [ 246]? 5.61 ± 9.21 [ 181]
10. JPred -2.95 ± 7.68 [ 151] -2.04 ± 7.87 [ 108]? -3.10 ± 7.79 [ 129]? -1.85 ± 6.86 [ 144]? -1.74 ± 7.35 [ 166] -0.56 ± 7.08 [ 123] -0.81 ± 8.05 [ 128] 1.77 ± 9.86 [ 88]? 2.68 ± 9.89 [ 129]? 4.29 ± 8.18 [ 165]
11. PHDpsi -3.35 ± 9.00 [ 256] -2.36 ± 8.23 [ 198] -7.78 ± 10.36 [ 11] -2.24 ± 6.04 [ 295] -3.53 ± 8.22 [ 94] -2.04 ± 9.63 [ 222]? -1.40 ± 7.75 [ 192] -0.37 ± 7.81 [ 244] 0.81 ± 8.05 [ 128] 0.19 ± 10.24 [ 182] 0.99 ± 6.73 [ 69] 1.60 ± 5.66 [ 295]? 4.33 ± 9.89 [ 174]
12. Prospect -2.95 ± 9.12 [ 187] -3.56 ± 9.64 [ 150] -6.07 ± 5.80 [ 7] -2.39 ± 9.83 [ 184] -3.41 ± 11.55 [ 72] -3.21 ± 10.88 [ 188]? -1.94 ± 8.98 [ 150] -0.54 ± 9.79 [ 207] -1.77 ± 9.86 [ 88] -0.19 ± 10.24 [ 182] 0.59 ± 12.68 [ 62] 0.97 ± 11.03 [ 184]? 3.98 ± 12.03 [ 132]
13. JUFO -5.12 ± 8.47 [ 45] -5.34 ± 8.73 [ 59] -7.22 ± 16.93 [ 9] -2.52 ± 9.16 [ 69] -4.45 ± 8.57 [ 69] -4.59 ± 6.72 [ 31]?? -1.77 ± 9.37 [ 66]? -0.99 ± 6.73 [ 69] -0.59 ± 12.68 [ 62] -0.62 ± 7.38 [ 69]??
14. PHD -5.17 ± 10.10 [ 258] -4.08 ± 9.67 [ 199] -9.29 ± 10.60 [ 11] -3.83 ± 7.48 [ 297] -3.81 ± 8.50 [ 94] -3.42 ± 10.51 [ 224]? -3.61 ± 9.30 [ 194] -1.69 ± 8.46 [ 246] -2.68 ± 9.89 [ 129] -1.60 ± 5.66 [ 295] -0.97 ± 11.03 [ 184] 0.62 ± 7.38 [ 69]? 1.94 ± 9.91 [ 176]
15. PSSP???????????????
16. APSSP -7.45 ± 10.44 [ 210] -6.72 ± 10.70 [ 146]? -6.90 ± 10.02 [ 176]? -6.21 ± 8.97 [ 210]? -5.95 ± 9.61 [ 233] -5.61 ± 9.21 [ 181] -4.29 ± 8.18 [ 165] -4.33 ± 9.89 [ 174] -3.98 ± 12.03 [ 132]? -1.94 ± 9.91 [ 176]?

Analysis of sov score for Secondary Structure Prediction:
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