Before revision:  Interestingly, although LinearPartition is approximate, the resulting base pairing probabilities are  better correlated with the ground truth structures and lead to a small accuracy improvement  on families with the longest length sequences (16S and 23S rRNA) when used for downstream structure prediction , as well as a substantial improvement on long-distance base pairs (500+ nt apart).
After revision:  Interestingly, although LinearPartition is approximate, the resulting base pairing probabilities are better correlated with the ground truth structures . LinearPartition also leads to a small accuracy improvement on families with the longest length sequences (16S and 23S rRNA) when used for downstream structure prediction , as well as a substantial improvement on long-distance base pairs (500+ nt apart).