Using GPU to accelerate the pairwise structural RNA alignment with base pair probabilities.
Daniel SundfeldGeorge TeodoroJakob Hull HavgaardJan GorodkinAlba C. M. A. MeloPublished in: Concurr. Comput. Pract. Exp. (2020)
Keyphrases
- pairwise
- rna sequences
- sequence alignment
- multiple alignment
- global alignment
- rna secondary structures
- gpu accelerated
- rna secondary structure prediction
- secondary structure
- higher order
- multi class
- multiple sequence alignments
- real time
- free energy
- loss function
- dna sequences
- similarity measure
- markov random field
- semi supervised
- probability distribution
- dynamic time warping
- pairwise interactions
- structural analysis
- rna structures
- image alignment
- graphics processors
- image segmentation
- graph matching
- belief networks
- structural features
- graphics processing units
- multiple sequence alignment
- computational methods
- genome wide
- protein sequences
- graphics hardware
- parallel computation
- spectral clustering
- structural information
- point sets
- general purpose