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EVA summary for category sec (Pairwise)

Contents

About secondary structure prediction methods evaluated

Method NprotNweekDetailed results for method
ALL 441 91 method/index.html
APSSP   00method/apssp.html
APSSP2   35976method/apssp2.html
JPred   16729method/jpred.html
JUFO   13338method/jufo.html
PHD   37077method/phd.html
PHDpsi   36777method/phdpsi.html
PROF_king   36884method/prof_king.html
PROFsec   37077method/profsec.html
Prospect   28072method/prospect.html
PSIpred   36784method/psipred.html
PSSP   11method/pssp.html
SABLE   8021method/sable.html
SABLE2   234method/sable2.html
SAM-T99sec   32284method/samt99_sec.html
SCRATCH (SSpro3)   15939method/scratch.html
SSpro1   11method/sspro1.html
SSpro2   25748method/sspro2.html
SSpro4   124method/sspro4.html
yaspin   338method/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_kingPHDProspectPSSPJUFOAPSSP
1. PSIpred 0.01 ± 7.94 [ 270] 0.95 ± 8.87 [ 320] 4.27 ± 5.14 [ 23] 1.08 ± 7.79 [ 117] 2.19 ± 7.04 [ 65]? 1.30 ± 7.93 [ 232] 1.36 ± 5.69 [ 310] 2.95 ± 7.68 [ 151] 3.42 ± 9.79 [ 317] 3.54 ± 9.15 [ 315] 5.00 ± 10.66 [ 320] 4.02 ± 11.32 [ 236]? 7.26 ± 10.49 [ 98] 7.45 ± 10.44 [ 210]
2. SAM-T99sec -0.01 ± 7.94 [ 270] 0.57 ± 8.57 [ 271] 0.55 ± 10.13 [ 23] 0.89 ± 7.29 [ 144] 1.51 ± 8.07 [ 77]? 0.89 ± 8.04 [ 161] 1.28 ± 8.43 [ 251] 2.04 ± 7.87 [ 108] 2.69 ± 9.00 [ 269] 3.45 ± 8.98 [ 271] 4.09 ± 10.12 [ 271] 4.62 ± 10.62 [ 201]? 7.12 ± 9.83 [ 122] 6.72 ± 10.70 [ 146]
3. PROFsec -0.95 ± 8.87 [ 320] -0.57 ± 8.57 [ 271] 0.95 ± 14.29 [ 23] -0.85 ± 9.51 [ 159] -0.69 ± 10.53 [ 77]? 1.05 ± 7.26 [ 194] 0.55 ± 9.70 [ 297] 3.10 ± 7.79 [ 129] 2.24 ± 6.73 [ 366] 2.51 ± 8.85 [ 315] 3.61 ± 7.84 [ 369] 3.14 ± 11.44 [ 235]? 4.89 ± 10.73 [ 132] 6.90 ± 10.02 [ 176]
4. SABLE2 -4.27 ± 5.14 [ 23] -0.55 ± 10.13 [ 23] -0.95 ± 14.29 [ 23] -0.08 ± 11.79 [ 23] 0.68 ± 8.18 [ 23]?? 1.40 ± 10.89 [ 23]? 3.22 ± 16.16 [ 23] 6.30 ± 19.45 [ 22] 3.22 ± 16.16 [ 23] 12.24 ± 21.33 [ 18]? 8.43 ± 14.48 [ 19]?
5. SCRATCH (SSpro3) -1.08 ± 7.79 [ 117] -0.89 ± 7.29 [ 144] 0.85 ± 9.51 [ 159] 0.08 ± 11.79 [ 23] 0.49 ± 9.02 [ 69]?? 0.61 ± 7.74 [ 110]? 2.87 ± 10.28 [ 158] 3.50 ± 9.05 [ 149] 3.30 ± 10.72 [ 158] 4.53 ± 13.35 [ 116]? 5.94 ± 10.22 [ 124]?
6. SABLE -2.19 ± 7.04 [ 65] -1.51 ± 8.07 [ 77] 0.69 ± 10.53 [ 77] -0.68 ± 8.18 [ 23] -0.49 ± 9.02 [ 69]?? 0.27 ± 9.44 [ 70]? 2.75 ± 11.40 [ 76] 5.24 ± 12.85 [ 71] 3.50 ± 11.84 [ 77] 5.28 ± 13.41 [ 55]? 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 -1.36 ± 5.69 [ 310] -1.28 ± 8.43 [ 251] -0.55 ± 9.70 [ 297] -1.40 ± 10.89 [ 23] -0.61 ± 7.74 [ 110] -0.27 ± 9.44 [ 70]? 0.02 ± 7.22 [ 231] 1.85 ± 6.86 [ 144] 1.80 ± 10.38 [ 294] 2.16 ± 8.98 [ 308] 2.95 ± 11.18 [ 297] 3.57 ± 11.88 [ 240]? 5.94 ± 9.99 [ 95] 6.21 ± 8.97 [ 210]
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 -3.42 ± 9.79 [ 317] -2.69 ± 9.00 [ 269] -2.24 ± 6.73 [ 366] -3.22 ± 16.16 [ 23] -2.87 ± 10.28 [ 158] -2.75 ± 11.40 [ 76]? -1.40 ± 7.75 [ 192] -1.80 ± 10.38 [ 294] 0.81 ± 8.05 [ 128] 0.21 ± 9.01 [ 312] 1.29 ± 5.12 [ 366] 1.00 ± 11.46 [ 232]? 2.95 ± 9.07 [ 131] 4.33 ± 9.89 [ 174]
12. PROF_king -3.54 ± 9.15 [ 315] -3.45 ± 8.98 [ 271] -2.51 ± 8.85 [ 315] -6.30 ± 19.45 [ 22] -3.50 ± 9.05 [ 149] -5.24 ± 12.85 [ 71]? -1.11 ± 7.19 [ 204] -2.16 ± 8.98 [ 308] 0.56 ± 7.08 [ 123] -0.21 ± 9.01 [ 312] 0.82 ± 9.59 [ 315] 0.47 ± 10.86 [ 258]? 1.75 ± 9.57 [ 126] 5.61 ± 9.21 [ 181]
13. PHD -5.00 ± 10.66 [ 320] -4.09 ± 10.12 [ 271] -3.61 ± 7.84 [ 369] -3.22 ± 16.16 [ 23] -3.30 ± 10.72 [ 158] -3.50 ± 11.84 [ 77]? -3.61 ± 9.30 [ 194] -2.95 ± 11.18 [ 297] -2.68 ± 9.89 [ 129] -1.29 ± 5.12 [ 366] -0.82 ± 9.59 [ 315] -0.10 ± 12.23 [ 236]? 2.64 ± 9.25 [ 132] 1.94 ± 9.91 [ 176]
14. Prospect -4.02 ± 11.32 [ 236] -4.62 ± 10.62 [ 201] -3.14 ± 11.44 [ 235]-12.24 ± 21.33 [ 18] -4.53 ± 13.35 [ 116] -5.28 ± 13.41 [ 55]? -1.94 ± 8.98 [ 150] -3.57 ± 11.88 [ 240] -1.77 ± 9.86 [ 88] -1.00 ± 11.46 [ 232] -0.47 ± 10.86 [ 258] 0.10 ± 12.23 [ 236]? 0.82 ± 12.23 [ 114] 3.98 ± 12.03 [ 132]
15. PSSP????????????????
16. 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]??
17. 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]??

Analysis of sov score for Secondary Structure Prediction:
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