Pairwise comparison of long stretches of genomic DNA sequence can identify regions conserved across species, which often indicate functional significance. However, the novel insights frequently must be windowed from a flood of information; for instance, running an alignment program on two 50-kilobase sequences might yield over a hundred pages of alignments. Direct inspection of such a volume of...

The SuperPose web server rapidly and robustly calculates both pairwise and multiple protein structure superpositions using a modified quaternion eigenvalue approach. SuperPose generates sequence alignments, structure alignments, PDB (Protein Data Bank) coordinates and RMSD statistics, as well as difference distance plots and images (both static and interactive) of the superimposed molecules. Su...

Fortran 90 is the actual standard in term of data parallel language for scientiic computing. To develop a data parallel algorithm on a distributed memory machine, programmers generally use the High Performance Fortran extension of Fortran 90, in particular the data mapping directives. HPF-Builder graphical environment goal is to free the HPF programmers of all the syntactic constraints due to t...

Rapid advances in consumer electronics have led to the anomaly that consumer off the shelf (COTS) gaming hardware and software now provide better interactive graphics than military and other specialized systems costing orders of magnitude more. UTSAF is bridging software written to take advantage of the power of gaming systems by allowing them to participate in distributed simulations with mili...

Some international standards have been developed that are very likely to make a major impact on CVE (Collaborative Virtual Environment) technology: the Distributed Interactive Simulation (DIS) (IEEE Standard 1278.1)[8] and the High Level Architecture (HLA) (IEEE Standard 1516) [1]. Deriving from military-purpose simulations, DIS and HLA, however, have limitations on building large-scale general...

There is no dearth of opinion about the use of simulation in support of training, analysis, acquisition, and doctrine development in general. Similarly, there is abundant discourse including technical contributions about the use of distributed interactive simulation (DIS), in particular, in support of these three enterprises. It is arguable that there is no single opinion about the efficacy of ...

A key component in Distributed Interactive Simulations (DIS) is the number of data packets transmitted across the connected networks. To reduce the number of packets transmitted, DIS applications employ client-side predictive contracts. One widespread client-side predictive contract technique is dead reckoning. This paper proposes a hybrid predictive contract technique, which chooses either the...

The Connectionless, Lightweight, and Multiway (CLAM) communications environment provides efficient and scalable multi-protocol support for distributed applications using mullimodal data. 1bis paper presents motivation and design decisions behind the CLAM system, along with two simple but effective scheduling algorithms for the simultaneous support of multiple, threads-based user-space protocols...