Author: Seemann, Stefan E.; Gorodkin, Jan; Backofen, Rolf
Title: Unifying evolutionary and thermodynamic information for RNA folding of multiple alignments Document date: 2008_10_4
ID: wtvfow2f_45
Snippet: Next, we compared the RNA structure predictions of PETfold with Pfold and RNAalifold, using the default parameters for each program. On average over the entire data set, PETfold performed better than the other methods for a wide range of parameter settings. PETfold with default parameters predicts base pairs with 0.85 PPV, 0.88 SEN and 0.86 accuracy. Its mean MCC to the Rfam annotations of 0.85 is significantly higher than the 0.71 MCC obtained f.....
Document: Next, we compared the RNA structure predictions of PETfold with Pfold and RNAalifold, using the default parameters for each program. On average over the entire data set, PETfold performed better than the other methods for a wide range of parameter settings. PETfold with default parameters predicts base pairs with 0.85 PPV, 0.88 SEN and 0.86 accuracy. Its mean MCC to the Rfam annotations of 0.85 is significantly higher than the 0.71 MCC obtained for Pfold and the 0.79 obtained for RNAalifold ( Table 1) .
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