Implementing generic, object-oriented models in biology

@article{citeulike:561322, abstract = {This paper describes object-oriented programming (OOP) in terms relevant to the modeling of biological systems. Object-oriented programming is not a new technique but remains mostly unexploited in biosystems modeling. For biological scientists, the ideas of object-oriented design, based on the notions of taxonomy, discrete structures, behavior, and scale, make the approach intrinsically familiar and thus inherently compelling. We present a new OOP framework that may serve as a generic foundation for the production of plant models. This OOP framework represents a first step towards the development of generic model architectures and provides modularity, mechanistic richness, and advantages in process evaluation previously unavailable.}, author = {Sequeira, R. A. and Olson, R. L. and Mckinion, J. M. }, booktitle = {Modularity in Plant Models}, citeulike-article-id = {561322}, doi = {http://dx.doi.org/10.1016/S0304-3800(96)01925-4}, journal = {Ecological Modelling}, keywords = {biology, genericity, modelling, modularity, oop, simulation}, month = {January}, number = {1}, pages = {17--31}, posted-at = {2006-03-23 14:54:47}, priority = {2}, title = {Implementing generic, object-oriented models in biology}, url = {http://dx.doi.org/10.1016/S0304-3800(96)01925-4}, volume = {94}, year = {1997} }

TY - JOUR ID - citeulike:561322 L3 - citeulike-article-id:561322 TI - Implementing generic, object-oriented models in biology T2 - Modularity in Plant Models JF - Ecological Modelling VL - 94 IS - 1 SP - 17 EP - 31 N2 - This paper describes object-oriented programming (OOP) in terms relevant to the modeling of biological systems. Object-oriented programming is not a new technique but remains mostly unexploited in biosystems modeling. For biological scientists, the ideas of object-oriented design, based on the notions of taxonomy, discrete structures, behavior, and scale, make the approach intrinsically familiar and thus inherently compelling. We present a new OOP framework that may serve as a generic foundation for the production of plant models. This OOP framework represents a first step towards the development of generic model architectures and provides modularity, mechanistic richness, and advantages in process evaluation previously unavailable. KW - biology KW - genericity KW - modelling KW - modularity KW - oop KW - simulation AU - Sequeira, RA AU - Olson, RL AU - Mckinion, JM PY - 1997/01/01/ UR - http://dx.doi.org/10.1016/S0304-3800(96)01925-4 ER -