This paper aims to describe the implementation of TAKAKAW, an efficient parallel application for the simulation of molecular dynamics designed to handle large proteins in biology....
Several fast sequential algorithms have been proposed in the past to multiply sparse matrices. These algorithms do not explicitlyaddresstheimpactofcachingonperformance. We show th...
Many applications require the derivatives of functions defined by computer programs. Automatic differentiation (AD) is a means of developing code to compute the derivatives of com...
In order to achieve practical efficient execution on a parallel architecture, a knowledge of the data dependencies related to the application appears as the key point for building...
This paper describes an environment for supporting very large ontologies. The system can be used on single PCs, workstations, a cluster of workstations, and high-end parallel supe...
Kilian Stoffel, Merwyn G. Taylor, James A. Hendler