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Related Experiment Videos

FieldML: concepts and implementation.

G Richard Christie¹, Poul M F Nielsen, Shane A Blackett

¹Auckland Bioengineering Institute, University of Auckland, Auckland 1142, New Zealand. r.christie@auckland.ac.nz

Philosophical Transactions. Series A, Mathematical, Physical, and Engineering Sciences

|April 22, 2009

Summary

This summary is machine-generated.

FieldML is a new standard for describing and exchanging field data in software. This flexible language is ideal for complex biological systems and integrates with open-source tools.

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Area of Science:

Bioengineering
Computational Biology
Scientific Software Development

Background:

Standardized field description is crucial for complex biological modeling.
Existing methods lack flexibility for diverse computational techniques.
Bioengineering has a long history of developing specialized modeling software.

Purpose of the Study:

Introduce FieldML as a standard for field modeling and interchange.
Demonstrate FieldML's capability in describing complex biological systems.
Outline its integration with open-source computational software.

Main Methods:

Development of FieldML, a rich set of operators for defining generalized fields.
Extensibility through new operators and arbitrary combination in expressions.
Application to a spatially varying finite-element field example.

Main Results:

FieldML provides a flexible and extensible framework for field descriptions.
The language supports defining fields as functions of other fields.
Successful integration with established open-source computation and visualization software.

Conclusions:

FieldML offers a powerful, standardized approach for bioengineering and computational biology.
Its design facilitates the description of complex biological materials and organ systems.
Current implementations demonstrate its practical utility in established software.