node package manager
Love JavaScript? Your insights can make it even better. Take the 2017 JavaScript Ecosystem Survey »

complexviewer

ComplexViewer

Colin W Combe, Marine (Dumousseau) Sivade, Henning Hermjakob, Joshua Heimbach, Birgit H M Meldal, Gos Micklem, Sandra Orchard, Juri Rappsilber; ComplexViewer: visualization of curated macromolecular complexes, Bioinformatics, Volume 33, Issue 22, 15 November 2017, Pages 3673–3675, https://doi.org/10.1093/bioinformatics/btx497

v1 of the interaction viewer is deployed in EBI's Complex Portal, e.g. http://www.ebi.ac.uk/intact/complex/details/EBI-706830

We are working towards a general purpose web component for visualising interactions between biomolecules. The aim is to represent the data present in the PSI-MI standards.

Input data

The 'MI-JSON' data format consumed by the interaction-viewer is generated by the JAMI framework. See: https://github.com/MICommunity/psimi

JAMI is capable of converting between various MI data formats, it can convert the PSI-MI XML standard into the MI-JSON format.

JAMI was originally developed by Marine Dumousseau, who also largely determined the structure of the MI-JSON format the viewer reads.

Build Process

(0. install nodejs, npm)

  1. Clone the repository.
  2. $ cd /interaction-viewer
  3. $ npm install
  4. $ npm start

This starts a grunt task to watch the /src folder for changes. When a file changes (is saved), grunt will browserify the folder and save the compiled version in /build.

To build the minified version in /build, run:

  1. $ grunt package