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. 2016 Aug 17;10:76. doi: 10.1186/s12918-016-0304-1

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© The Author(s) 2016

Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0 International License(http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver(http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

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Fig. 2 — Components of the CroCo framework. The CroCo framework consists of a data repository (croco-repo), an Application Programming Interface (API) (croco-api), an interactive web interface (croco-web), and a Cytoscape plug-in (croco-cyto). The croco-repo is a central database, which includes derived context-specific and global networks, ortholog mappings, and gene annotations. Via the croco-web interface, networks can be compared based on several properties such as the number of total interactions, or the number of in-/out-interactions (in-/out-degree) of specific genes. For Cytoscape, we developed a plug-in (croco-cyto) for downstream analysis. Finally, in order to assist the development of customized workflows, the croco-api can be used to integrate CroCo in additional processing and analysis pipelines