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BMCBI
2002
108views more  BMCBI 2002»
13 years 10 months ago
A memory-efficient dynamic programming algorithm for optimal alignment of a sequence to an RNA secondary structure
Background: Covariance models (CMs) are probabilistic models of RNA secondary structure, analogous to profile hidden Markov models of linear sequence. The dynamic programming algo...
Sean R. Eddy
PPDP
2005
Springer
14 years 4 months ago
Program transformation by templates based on term rewriting
Huet and Lang (1978) presented a framework of automated program transformation based on lambda calculus in which programs are transformed according to a given program transformati...
Yuki Chiba, Takahito Aoto, Yoshihito Toyama
DLS
2007
138views Languages» more  DLS 2007»
14 years 2 months ago
OMeta: an object-oriented language for pattern matching
This paper introduces OMeta, a new object-oriented language for pattern matching. OMeta is based on a variant of Parsing Expression Grammars (PEGs) [5]--a recognitionbased foundat...
Alessandro Warth, Ian Piumarta
BMCBI
2008
100views more  BMCBI 2008»
13 years 11 months ago
PatternLab for proteomics: a tool for differential shotgun proteomics
Background: A goal of proteomics is to distinguish between states of a biological system by identifying protein expression differences. Liu et al. demonstrated a method to perform...
Paulo C. Carvalho, Juliana S. G. Fischer, Emily I....
KES
2008
Springer
13 years 11 months ago
Ontology-Based Design Pattern Recognition
This paper presents ontology-based architecture for pattern recognition in the context of static source code analysis. The proposed system has three subsystems: parser, OWL ontolog...
Damir Kirasic, Danko Basch