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Virtual Cell is an advanced software platform for modeling and simulating reaction kinetics, membrane transport and diffusion in the complex geometries of cells and multicellular tissues. VCell models have a hierarchical tree structure. The trunk level is the " Physiology " consisting of compartments, species and chemical reactions, and ...
Open Bioinformatics Foundation. BioPHP. PHP language toolkit with classes for DNA and protein sequence analysis, alignment, database parsing, and other bioinformatics tools. Cross-platform. GPL v2. Open Bioinformatics Foundation. Biopython. Python language toolkit. Cross-platform.
Definition. Life simulation games are about "maintaining and growing a virtual life", where players are given the power to control the lives of autonomous people or creatures. Artificial life games are related to computer science research in artificial life. But "because they're intended for entertainment rather than research, commercial A-life ...
InCroMAP. tool for the integration of omics data and joint visualization of experimental data in pathways. multiplatform (Java-based) LGPL. [14] Pathview. pathway based data integration and visualization, easy to use and integrate into pathway analysis. multiplatform (R/Bioconductor) GPL.
Biosimulation is a computer-aided mathematical simulation of biological processes and systems and thus is an integral part of systems biology. Due to the complexity of biological systems simplified models are often used, which should only be as complex as necessary. The aim of biosimulations is model-based prediction of the behaviour and the ...
Modelling biological systems is a significant task of systems biology and mathematical biology. [a] Computational systems biology [b] [1] aims to develop and use efficient algorithms, data structures, visualization and communication tools with the goal of computer modelling of biological systems. It involves the use of computer simulations of ...
iBioSim [5] [6] is a computer-aided design (CAD) tool for the modeling, analysis, and design of genetic circuits. GUI/Scripting tool [7] for building and simulating multicellular models. Yes, but only for reactions. GUI tool [8] [9] for analyzing and simulating SBML models.
Biological data visualization is a branch of bioinformatics concerned with the application of computer graphics, scientific visualization, and information visualization to different areas of the life sciences. This includes visualization of sequences, genomes, alignments, phylogenies, macromolecular structures, systems biology, microscopy, and ...