Fluorescence resonance energy transfer (FRET) can be utilized to gain low-resolution structural information by reporting on the proximity of molecules or measuring inter- and intramolecular distances. This method exploits the fact that the probability of the energy transfer is related to the separation between the fluorescent molecules. This relationship is well described for a single pair of f...

A key problem in diagrammatic reasoning is understanding how people reason about qualitative relationships in diagrams. We claim that progress in diagrammatic reasoning is slowed by two problems: (1) researchers tend to start from scratch, creating new spatial reasoners for each new problem area, and (2) constraints from human visual processing are rarely considered. To address these problems, ...

Model evolution is an essential activity in software system modeling, which is traditionally supported by manual editing or writing model transformation rules. However, this process presents challenges to those who are unfamiliar with a model transformation language or abstract syntax definitions. This demonstration presents an approach to ease the implementation of model evolution tasks by rec...

This paper presents a system called CodeBreaker for supporting small and medium size software development based on an extreme programming principle. The system follows a decentralized model of development, which means, it does not requires a central repository. A set of rules for code ownership maintains the synchroniza tion of the work among all members of the developing team which can work on...

SUMMARY We present an open source, platform independent tool, called CisGenome Browser, which can work together with any other data analysis program to serve as a flexible component for genomic data visualization. It can also work by itself as a standalone genome browser. By working as a light-weight web server, CisGenome Browser is a convenient tool for data sharing between labs. It has featur...

High interactivity in real-time environments requires new system design concepts for virtual reality environments. We will define our understanding of a modern system and describe the prototypical system Lightning, which addresses some of these new features.

snakes is a general purpose Petri nets library, primarily for the Python programming language but portable to other ones. It defines a very general variant of Python-coloured Petri nets that can be created and manipulated through the library, as well as executed to explore state spaces. Thanks to a variety of plugins, snakes can handle extensions of Petri nets, in particular algebras of Petri n...

Model-based user interface development environments aim to provide designers with a more systematic approach to user interface development using a particular design method. This method is realised through tools which support the construction and linkage of the supported models. This paper presents the tools which support the construction of the Teallach models in the context of the Teallach des...

UNLABELLED Hidden Markov models (HMMs) are probabilistic models that are well-suited to solve many different classification problems in computation biology. StochHMM provides a command-line program and C++ library that can implement a traditional HMM from a simple text file. StochHMM provides researchers the flexibility to create higher-order emissions, integrate additional data sources and/or ...

Current trend of constructing new systems from collections of pre-existing third-party tools and commercial off-the-shelf (COTS) software presents serious challenges to existing integration technology. The unique constraints of third-party software (such as inadequacy of integration interfaces, closeness of the system architecture, and lack of access to the source code), the interactive, autono...