Motivation: Since the whole genome sequences for many species are currently available, computational predictions of RNA secondary structures and computational identifications of t...
Stochastic models such as hidden Markov models or stochastic context free grammars can fail to return the correct, maximum likelihood solution in the case of semantic ambiguity. T...
Background: Pairwise stochastic context-free grammars (Pair SCFGs) are powerful tools for evolutionary analysis of RNA, including simultaneous RNA sequence alignment and secondary...