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Phylogentic analysis is becoming an increasingly important tool for customized drug treatments, epidemiological studies, and evolutionary analysis. The TCS method provides an important tool for dealing with genes at a population level. Existing software for TCS analysis takes an unreasonable amount of time for the analysis of significant numbers of Taxa.(More)
Emerging next-generation sequencing technologies have revolutionized the collection of genomic data for applications in bioforensics, biosurveillance, and for use in clinical settings. However, to make the most of these new data, new methodology needs to be developed that can accommodate large volumes of genetic data in a computationally efficient manner.(More)
While there is growing interest in using Java for high-performance applications, many in the highperformance computing community do not believe that Java can match the performance of traditional native message passing environments. This paper discusses critical issues that must be addressed in the design of Java based message passing systems. Efficient(More)
As supercomputing resources become more available, users will require resources managed by several local schedulers. For example, a user may request 100 processors, a telescope, network bandwidth and a graphics display in order to perform an experiment. In order to gain access to all of these resources (some of which may be in di erent geographical and(More)
MOTIVATION The advent of next-generation sequencing technologies has increased the accuracy and quantity of sequence data, opening the door to greater opportunities in genomic research. RESULTS In this article, we present GNUMAP (Genomic Next-generation Universal MAPper), a program capable of overcoming two major obstacles in the mapping of reads from(More)