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» Evaluation of several lightweight stochastic context-free gr...
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CSB
2004
IEEE
208views Bioinformatics» more  CSB 2004»
13 years 11 months ago
Pair Stochastic Tree Adjoining Grammars for Aligning and Predicting Pseudoknot RNA Structures
Motivation: Since the whole genome sequences for many species are currently available, computational predictions of RNA secondary structures and computational identifications of t...
Hiroshi Matsui, Kengo Sato, Yasubumi Sakakibara
TCBB
2011
13 years 2 months ago
Semantics and Ambiguity of Stochastic RNA Family Models
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...
Robert Giegerich, Christian Höner zu Siederdi...
BMCBI
2005
162views more  BMCBI 2005»
13 years 7 months ago
Accelerated probabilistic inference of RNA structure evolution
Background: Pairwise stochastic context-free grammars (Pair SCFGs) are powerful tools for evolutionary analysis of RNA, including simultaneous RNA sequence alignment and secondary...
Ian Holmes