neXtProt - The knowledge resource on human proteins

This is a code repository for the SIB - Swiss Institute of Bioinformatics CALIPHO group neXtProt project

See: https://www.nextprot.org/

neXtProt sequence viewer

The sequence viewer is a super easy javascript library to use in order to draw a protein sequence in a readable way.

Live demo: https://cdn.rawgit.com/calipho-sib/sequence-viewer/master/examples/index.html

Simple example: https://cdn.rawgit.com/calipho-sib/sequence-viewer/master/examples/simple.html

Getting Started

1. Include the library using NPM/Yarn

//NPM//
npm install sequence-viewer

//YARN//
yarn add sequence-viewer

Or Include the feature-viewer from jsDelivr CDN in the header of your html

<script src="https://cdn.jsdelivr.net/gh/calipho-sib/sequence-viewer@v1.0.0/dist/sequence-viewer.bundle.js"></script>

NOTE : If you already got the dependencies (Bootstrap & Jquery) in your project, use the simple minified version instead of the bundle :

<script src="https://cdn.jsdelivr.net/gh/calipho-sib/sequence-viewer@v1.0.0/dist/sequence-viewer.min.js"></script>

2. Specify a div in your html

<div id="sequence-viewer"></div>

3. Create an instance of Sequence in JavaScript and apply the render method

var seq = new Sequence('MALWMRLLPLLALLALWGPGPGAGSLQPLALEGSLQKRGIVEQCCTSICSLYQLENYCN');
// Render the sequence with or without rendering options
// (Check the interactive documentation)
seq.render('#sequence-viewer');

To import Sequence Viewer into an ES2015 application, you can import specific symbols from specific Sequence Viewer modules:

import Sequence from "sequence-viewer";

4. Et voila!

Note: if you choose the later approach with only the main javascript you should also include the dependencies, jquery,handlebars and bootstrap.min.css

Documentation

Check out this interactive page for a better understanding of how to use the sequence viewer and its possibilities :

• https://cdn.rawgit.com/calipho-sib/sequence-viewer/master/examples/index.html

Options

• Show chars per line
• Wrap lines
• Highlight
• Coverage
• Labels
• Toolbar (chars per line)
• Search
• Title
• sequenceMaxHeight
• Events
• Badge

Examples

https://search.nextprot.org/entry/NX_P01308/structures

Support

If you have any problem or suggestion please open an issue here.

Development

git clone https://github.com/calipho-sib/sequence-viewer.git

npm install (will install the development dependencies)

npm start (will start the development server on localhost:8080)

...make your changes and modifications...

npm run build (will create the bundle js & css in build/)

npm publish (will publish in npm)

License

This software is licensed under the GNU GPL v2 license, quoted below.

Copyright (c) 2015, SIB Swiss Institute of Bioinformatics