next up previous contents
Next: Comparison of prediction accuracy Up: Results and Discussion Previous: Analysis of the test

Alignment quality

The RS126 set of proteins was used to check that the alignments generated by our method could reproduce previous results for PHD[27], and DSC[29]. PHD[27] (run in cross-validation mode) increased in average Q3 accuracy by 1.9% from 71.6 to 73.5%, over the published accuracy. The accuracy obtained here for DSC improved by 1.0%. However, the published value of 70.1% for DSC was for a full jack-knife test, whereas our test utilised all the data. These results confirm that the automatic method used to build multiple alignments in this study is appropriate for secondary structure prediction.



james@ebi.ac.uk