About CellMaps

Welcome to the CellMaps wiki! Here you will find all the documentation needed to work with CellMaps.

CellMaps is an open source HTML5 web-based application that allows researchers to easily model, visualize, integrate data and analyse biological networks inside a web browser. It has been designed in a modular fashion to be easily integrated into different web sites, and implemented using modern web technologies to be interactive even when large networks with hundreds of nodes are loaded.

CellMaps implements several networks and functional analysis, but also more and new analysis can be easily integrated through the plugin framework developed. Some of the main features implemented include: importing local or remote files (most common formats are supported), loading and managing attributes files for nodes and edges that allow researchers to filter and select subnetworks, several layouts available from d3js.org, an analysis plugin framework to easily extend the core functionality, an user registration to save and store sessions remotely so users can work from several computers.

CellMaps is implemented using HTML5 and SVG open standards, thus it runs in modern web browsers without any other plugin or technology such as Flash or Java Applets. This architecture makes CellMaps easily embeddable in any web application such as [Babelomics] (http://babelomics.bioinfo.cipf.es/) and RENATO.

Therefore, no installation or updates is needed, all computation is executed in our servers and biological data is taken from [CellBase] (http://nar.oxfordjournals.org/content/early/2012/06/12/nar.gks575) web services, so users can build up their networks from Reactome, KEGG or IntAct data, or visualize rich widgets containing many relevant information about genes or proteins such as miRNA, TFBS or mutations.