Pleione: A tool for statistical and multi-objective calibration of Rule-based models.

ABSTRACT: Mathematical models based on Ordinary Differential Equations (ODEs) are frequently used to describe and simulate biological systems. Nevertheless, such models are often difficult to understand. Unlike ODE models, Rule-Based Models (RBMs) utilise formal language to describe reactions as a cumulative number of statements that are easier to understand and correct. They are also gaining popularity because of their conciseness and simulation flexibility. However, RBMs generally lack tools to perform further analysis that requires simulation. This situation arises because exact and approximate simulations are computationally intensive. Translating RBMs into ODEs is commonly used to reduce simulation time, but this technique may be prohibitive due to combinatorial explosion. Here, we present the

SUBMITTER: Santibanez R 

PROVIDER: S-EPMC6805871 | biostudies-literature | 2019 Oct

REPOSITORIES: biostudies-literature