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Comparison of different simulation software.

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posted on 2022-04-20, 17:39 authored by William Poole, Ayush Pandey, Andrey Shur, Zoltan A. Tuza, Richard M. Murray

Abstraction: how models can be represented in the software. Library: whether there is a substantial library of pre-existing parts/components/sub-models that can be reused. Simulator: whether the software simulates models numerically. Source: the language(s) the software is written in. UI: the primary way a user interacts with the software. API: the primary programming language the software is designed to be accessed with.

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    chemical reaction networksunderlying crn automaticallyactual crn representationoften occurring mismatchlevel design specificationdiv >< pdiverse biomolecular environmentsoften modeledlevel designsbiomolecular partscrn implementationsvivo users rangingsynthetic biologysoftware toolboxrepresented succinctlyparameter databasenumerous simulatorsnovice scriptmodels compatiblemodel dynamicshuge rangefree extractsexpert modelerseasily builddifferent architecturescustomized latercrns providecrns ).biochemical processesbiochemical partsbiochemical interactionsbiochemical circuitsallows users

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