We propose an algorithm for estimating the common secondary structure, alignment, and posterior base pairing probabilities for two RNA sequences. A definition of structural align...
Arif Ozgun Harmanci, Gaurav Sharma, David H. Mathe...
Background: RNA structure prediction problem is a computationally complex task, especially with pseudo-knots. The problem is well-studied in existing literature and predominantly ...
S. P. T. Krishnan, Sim Sze Liang, Bharadwaj Veerav...
We show a method for parallelizing top down dynamic programs in a straightforward way by a careful choice of a lock-free shared hash table implementation and randomization of the ...
Alex Stivala, Peter J. Stuckey, Maria Garcia de la...
This paper discusses the use of “relative debugging” as a technique for locating errors in a program that has been ported or developed using evolutionary software engineering ...
David Abramson, Raphael A. Finkel, Donny Kurniawan...
Abstract: The analysis of RNA folding landscapes yields insights into the kinetic folding behavior not available from classical structure prediction methods. This is especially imp...