Background: Pairwise stochastic context-free grammars (Pair SCFGs) are powerful tools for evolutionary analysis of RNA, including simultaneous RNA sequence alignment and secondary...
Abstract. We introduced an algorithm for sequence alignment, based on maximizing local space-time correlations. Our algorithm aligns sequences of the same action performed at diffe...
We develop a parallel algorithm for a widely used whole genome alignment method called LAGAN. We use the MPI-based protocol to develop parallel solutions for two phases of the alg...
Runtime data alignment has been paid attention recently since it can allocate data segment to processors dynamically according to applications' requirement. One of the key opt...
Background: Joint alignment and secondary structure prediction of two RNA sequences can significantly improve the accuracy of the structural predictions. Methods addressing this p...
Arif Ozgun Harmanci, Gaurav Sharma, David H. Mathe...