An algorithm for computing nucleic acid base-pairing probabilities including pseudoknots.
Robert M. DirksNiles A. PiercePublished in: J. Comput. Chem. (2004)
Keyphrases
- optimization algorithm
- times faster
- dynamic programming
- learning algorithm
- computational complexity
- computational cost
- cost function
- experimental evaluation
- worst case
- rna secondary structure prediction
- improved algorithm
- expectation maximization
- np hard
- optimal solution
- preprocessing
- objective function
- search space
- segmentation algorithm
- matching algorithm
- genetic algorithm
- recognition algorithm
- convergence rate
- ant colony optimization
- detection algorithm
- theoretical analysis
- maximum likelihood
- simulated annealing
- data sets
- significant improvement