On the server side, the results of the database evaluation are converted with PHP scripts into JSON format and transferred to the InfoVis library which renders the graph for visualizing the results.
var instance = new Biojs.PsicquicGraph ({ target: ʼ example ʼ, psicquicUrl: ʼ http://www.ebi.ac.uk/Tools/ webservices/psicquic/intact/webservices/ current/search/query ʼ, proxyUrl: ʼ proxy.php ʼ, query: ʼ species:human? firstResult=0 &maxResults=100 ʼ }); By default, PsicquicGraph renders the graph using a circle layout.
The minimal input for PsicquicGraph is (i) the URL of a valid PSICQUIC server, (ii) a valid MIQL query, (iii) a target container (HTML tag; usually a DIV) identifier to render the interactions graph and (iv) a proxy URL to bypass the same domain policy constraint in JavaScript.
In Figure 6(B), the graph is rendered after pruning all edges with weights Eij<0.25, partitioning the graph into multiple individually connected components.
After retrieving the interactions in PSIMITAB format, the interactions are parsed by PsicquicGraph and the graph is rendered using Cytoscape.js.js
Since the graph is rendered with SVG technology, rescaling does not lower graphical resolution, and text legibility is preserved over a wide range of zoom levels.
Given the increasing popularity for web-based visualization, the support for exporting the graph for D3.js rendering is certainly a welcome step.
A third party library, called ZedGraph [ 27], is employed to render the simulation results as a graph.
I can imagine situations in which a user would like to generate a slide or publication-ready image from the graph that they've rendered and lovingly customized.
Three types of transformations occur in the process of rendering a graph, in the following order: (i) scale transformations, which convert from data units to graphical units used by the computer; (ii) statistical transformations, which reduce input data to a form required by a geom, and (iii) coordinate transformations, which manipulate the coordinate system of a graph.
