Jaqpot is a computational platform for in silico modelling of chemical compounds, that provides both access to its services both over a User Interface (GUI) and an Application Programming Interface (API). It is a cloud-ready application that uses the benefits of Java, R and Python, having incorporated functionality by various established and open-source machine learning and data analysis toolkits, while algorithms in any programming algorithm can be added to Jaqpot. A new version of the UI and API is in preparation and will be released within 2019

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Systems Biology Markup Language (SBML)

Published by SBML

SBMLIn silico

SBML is a software data format for describing models in biology. It’s a little like HTML, but for formal models instead of web pages. It’s independent of any particular software tool and not limited to any particular field of the life sciences. It’s open and free.

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Synthetic Biology Open Language (SBOL)

Published by Journal of Integrative Bioinformatics

In silicoSynthetic Biology Open LanguageSBOL

The synthetic biology open language (SBOL) has been developed as a standard to support the specification and exchange of biological design information in synthetic biology, filling a need not satisfied by other pre-existing standards. This document details version 2.3.0 of SBOL. SBOL 2.3.0 includes means of succinctly representing sequence modifications, such as insertion, deletion, and replacement, an extension to support organization and attachment of experimental data derived from designs, and an extension for describing numerical parameters of design elements.

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COmputational Modeling in BIology Network (COMBINE)

Published by COmputational Modeling in BIology NEtwork

computational modelsIn silico models

The “COmputational Modeling in BIology NEtwork” (COMBINE) is an initiative to coordinate the development of the various community standards and formats for computational models. By doing so, it is expected that the federated projects will develop a set of interoperable and non-overlapping standards covering all aspects of modeling in biology

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