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Cell-based models are mathematical models that represent biological cells as discrete entities. Within the field of computational biology they are often simply called agent-based models [1] of which they are a specific application and they are used for simulating the biomechanics of multicellular structures such as tissues. to study the influence of these behaviors on how tissues are organised ...
The formalism can be extended to include cell behaviours such as cell migration, growth and division, and cell signalling. The first CPM was proposed for the simulation of cell sorting by François Graner and James A. Glazier as a modification of a large-Q Potts model. [1] CPM was then popularized by Paulien Hogeweg for studying morphogenesis. [2]
For a given set of points in space, a Voronoi diagram is a decomposition of space into cells, one for each given point, so that anywhere in space, the closest given point is inside the cell. This is equivalent to nearest neighbor interpolation, by assigning the function value at the given point to all the points inside the cell. [ 3 ]
R – free implementation of the S (programming language) Programming with Big Data in R (pbdR) – a series of R packages enhanced by SPMD parallelism for big data analysis; R Commander – GUI interface for R; Rattle GUI – GUI interface for R; Revolution Analytics – production-grade software for the enterprise big data analytics
The optimal solution to the flux-balance problem is rarely unique with many possible, and equally optimal, solutions existing. Flux variability analysis (FVA), built into some analysis software, returns the boundaries for the fluxes through each reaction that can, paired with the right combination of other fluxes, estimate the optimal solution.
Principal component analysis (PCA) is a linear dimensionality reduction technique with applications in exploratory data analysis, visualization and data preprocessing.. The data is linearly transformed onto a new coordinate system such that the directions (principal components) capturing the largest variation in the data can be easily identified.
Fluid mosaic model of a cell membrane. The fluid mosaic model explains various characteristics regarding the structure of functional cell membranes.According to this biological model, there is a lipid bilayer (two molecules thick layer consisting primarily of amphipathic phospholipids) in which protein molecules are embedded.
The roofline model is an intuitive visual performance model used to provide performance estimates of a given compute kernel or application running on multi-core, many-core, or accelerator processor architectures, by showing inherent hardware limitations, and potential benefit and priority of optimizations.