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The evolutionary history of a set of taxa is usually represented by a phylogenetic tree, and this model has greatly facilitated the discussion and testing of hypotheses. However, it is well known that more complex evolutionary scenarios are poorly described by such models. Further, even when

on the hardware based transactional synchronization methodology of Herlihy and Moss, we offer software transactional memory (STM), a novel software method for supporting flexible transactional programming of synchronization operations. STM is non-blocking, and can be implemented on existing machines using only a

. In this program, various methods for estimating evolutionary distances from nucleotide and amino acid sequence data, three different methods of phylogenetic inference (UPGMA, neighbor-joining and maximum parsimony) and two statistical tests of topological differences are included. For the maximum parsimony method

In this paper, we provide a systematic comparison of various evolutionary approaches to multiobjective optimization using six carefully chosen test functions. Each test function involves a particular feature that is known to cause difficulty in the evolutionary optimization process, mainly

Agent-oriented techniques represent an exciting new means of analysing, designing and building complex software systems. They have the potential to significantly improve current practice in software engineering and to extend the range of applications that can feasibly be tackled. Yet, to date

We present a new tool, named DART, for automatically testing software that combines three main techniques: (1) automated extraction of the interface of a program with its external environment using static source-code parsing; (2) automatic generation of a test driver for this interface

, with over 40 implementations of the FFT on 7 machines. Our tests show that FFTW's self-optimizing approach usually yields significantly better performance than all other publicly available software. FFTW also compares favorably with machine-specific, vendor-optimized libraries. 1. INTRODUCTION

5 (MEGA5), which is a user-friendly software for mining online databases, building sequence alignments and phylogenetic trees, and using methods of evolutionary bioinformatics in basic biology, biomedicine, and evolution. The newest addition in MEGA5 is a collection of maximum likelihood (ML

The problems of designing large software systems were studied through interviewing personnel from 17 large projects. A layered behavioral model is used to analyze how three lgf these problems-the thin spread of application domain knowledge, fluctuating and conflicting requirements