Rna Models

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PFold vs. RFAM-trained parameters

Below are bubbleplots of the covariant RNA basepair model from PFOLD, and similar models that were re-estimated using XRATE from various structure-annotated RNA alignment datasets:

Original Pfold parameters RFAM-trained parameters rRNA-trained parameters
RnaModels.ncRnaDualStrand v12.png RnaModels.ncRnaDualStrand v13.png RnaModels.mix80.png

The rRNA-trained parameters (right) were estimated from the CONSAN mix80 dataset, derived by Dowell & Eddy from the European rRNA database.


(For related discussion, see Rna Model Discussion)