Background: Common existing phylogenetic tree visualisation tools are not able to display readable trees with more than a few thousand nodes. These existing methodologies are based in two dimensional space. Results: W...
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Background: Common existing phylogenetic tree visualisation tools are not able to display readable trees with more than a few thousand nodes. These existing methodologies are based in two dimensional space. Results: We introduce the idea of visualising phylogenetic trees in three dimensional hyperbolic space with the Walrus graph visualisation tool and have developed a conversion tool that enables the conversion of standard phylogenetic tree formats to Walrus' format. With Walrus, it becomes possible to visualise and navigate phylogenetic trees with more than 100,000 nodes. Conclusion: Walrus enables desktop visualisation of very large phylogenetic trees in 3 dimensional hyperbolic space. This application is potentially useful for visualisation of the tree of life and for functional genomics derivatives, like The Adaptive Evolution Database (TAED).
Background: New techniques for determining relationships between biomolecules of all types genes, proteins, noncoding DNA, metabolites and small molecules-are now making a substantial contribution to the widely discus...
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Background: New techniques for determining relationships between biomolecules of all types genes, proteins, noncoding DNA, metabolites and small molecules-are now making a substantial contribution to the widely discussed explosion of facts about the cell. The data generated by these techniques promote a picture of the cell as an interconnected information network, with molecular components linked with one another in topologies that can encode and represent many features of cellular function. This networked view of biology brings the potential for systematic understanding of living molecular systems. Results: We present VisANT, an application for integrating biomolecular interaction data into a cohesive, graphical interface. This software features a multi-tiered architecture for data flexibility, separating back-end modules for data retrieval from a front-end visualization and analysis package. VisANT is a freely available, open-source tool for researchers, and offers an online interface for a large range of published data sets on biomolecular interactions, including those entered by users. This system is integrated with standard databases for organized annotation, including GenBank, KEGG and SwissProt. VisANT is a Java-based, platform-independent tool suitable for a wide range of biological applications, including studies of pathways, gene regulation and systems biology. Conclusion: VisANT has been developed to provide interactive visual mining of biological interaction data sets. The new software provides a general tool for mining and visualizing such data in the context of sequence, pathway, structure, and associated annotations. Interaction and predicted association data can be combined, overlaid, manipulated and analyzed using a variety of built-in functions. VisANT is available at http://***.
The methods and their advantages of using one AutoCAD entity as stamping die profile are presented. A new layout algorithm, called iterative horizontal-line-incision layout algorithm, is put forward based on one-entit...
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The methods and their advantages of using one AutoCAD entity as stamping die profile are presented. A new layout algorithm, called iterative horizontal-line-incision layout algorithm, is put forward based on one-entity profile technology. Comparison between this and the usually used region layout algorithm is made. The module realization and sample application are introduced.
Fixture planning is a crucial problem in the field of fixture design. In this paper, the research scope and research methods of the computer aided fixture planning are presented. Based on positioning principles of typ...
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Fixture planning is a crucial problem in the field of fixture
design. In this paper, the research scope and research methods of the computer aided fixture
planning are presented. Based on positioning principles of typical workparts, an ANN algorithm,
namely Hopfield algorithm, is adopted for the automatic fixture planning. Also, this paper leads
a deep research into the selection of positioning and clamping surfaces (or points) on workparts
using positioning clamping surface selecting rules and matrix evaluation of deterministic
workpart positioning. In the end of this paper, the methods to select positioning and clamping
elements from database and the layout algorithm to assemble the selected fixture elements
into a tangible fixture are developed.
algorithms are presented in this paper for VLSI layout of come binary tree structures. In particular, we consider X-Tree and Hypertree multicomputers and show that they can be laid out in O(8 n ) and O( n √ n ) area ...
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algorithms are presented in this paper for VLSI layout of come binary tree structures. In particular, we consider X-Tree and Hypertree multicomputers and show that they can be laid out in O(8 n ) and O( n √ n ) area respectively. Our algorithms are based on an original algorithm proposed by Horowitz and Zorat for an arbitrary tree structure. The layout follows Thompson's VLSI model of computation that allows two layers of metalization.
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