GUIDE
- Left-click and drag the background to move the graph
- Left-click and drag the nodes to reorganize
- Left-click a node to view first level connections
- Double left-click a node to navigate to its page
- Double left-click the background to zoom in
- Right-click the background to zoom out
sigma.utils.pkg('sigma.canvas.nodes');
sigma.canvas.nodes.image = (function() {
var _cache = {},
_loading = {},
_callbacks = {};
// Return the renderer itself:
var renderer = function(node, context, settings) {
var args = arguments,
prefix = settings('prefix') || '',
size = node[prefix + 'size'],
color = node.color || settings('defaultNodeColor'),
url = node.url;
if (_cache[url]) {
context.save();
// Draw the clipping disc:
context.beginPath();
context.arc(
node[prefix + 'x'],
node[prefix + 'y'],
node[prefix + 'size'],
0,
Math.PI * 2,
true
);
context.closePath();
context.clip();
// Draw the image
context.drawImage(
_cache[url],
node[prefix + 'x'] - size,
node[prefix + 'y'] - size,
2 * size,
2 * size
);
// Quit the "clipping mode":
context.restore();
// Draw the border:
context.beginPath();
context.arc(
node[prefix + 'x'],
node[prefix + 'y'],
node[prefix + 'size'],
0,
Math.PI * 2,
true
);
context.lineWidth = 1;
context.strokeStyle = node.color || settings('defaultNodeColor');
context.stroke();
} else {
sigma.canvas.nodes.image.cache(url);
sigma.canvas.nodes.def.apply(
sigma.canvas.nodes,
args
);
}
};
// Let's add a public method to cache images, to make it possible to
// preload images before the initial rendering:
renderer.cache = function(url, callback) {
if (callback)
_callbacks[url] = callback;
if (_loading[url])
return;
var img = new Image();
img.onload = function() {
_loading[url] = false;
_cache[url] = img;
if (_callbacks[url]) {
_callbacks[url].call(this, img);
delete _callbacks[url];
}
};
_loading[url] = true;
img.src = url;
};
return renderer;
})();
var i,
s,
o,
offset_left = 0.5,
N = 1,
E = 40,
C = 5,
d = 0.5,
cs = [],
g = {
nodes: [],
edges: []
};
if (!sigma.classes.graph.hasMethod('neighbors')){
sigma.classes.graph.addMethod('neighbors', function(nodeId) {
var k,
neighbors = {},
index = this.allNeighborsIndex[nodeId] || {};
for (k in index)
neighbors[k] = this.nodesIndex[k];
return neighbors;
});
}
//adding the central node
g.nodes.push({
id: 4638,
label: 'Denis Houzelstein',
type: 'image',
url: 'https://research.pasteur.fr/wp-content/uploads/2015/09/research.pasteur.fr_denis_1-150x150.jpg',
x: 0,
y: 0,
size: 30,
color: '#DDDDDD'
});
var biggest_node_size = 0;
N=5
// adding node
var x_node = Math.cos(2 * 0 * Math.PI / N) * 10;
var y_node = Math.sin(2 * 0 * Math.PI / N) * 10;
g.nodes.push({
id: 131782,
label: 'PROJECT: Mammalian SD is a balance of mutually antagonistic pathways',
x: x_node,
y: y_node,
type: 'image',
url: '',
page_url: 'https://research.pasteur.fr/en/project/mammalian-sd-is-a-balance-of-mutually-antagonistic-pathways/',
size: 35,
color: '#DDDDDD'
});
//link content to central post
g.edges.push({
id: 4638131782,
size: 0.5,
source: 4638,
target: 131782,
});
//check if content already exist
if (x_node<0){
x_site = x_node + ((Math.random() * 2)-1) - offset_left;
}else{
x_site = x_node + ((Math.random() * 2)-1) + offset_left;
}
if (y_node<0){
y_site = y_node + ((Math.random() * 2)-1) - offset_left;
}else{
y_site = y_node + ((Math.random() * 2)-1) + offset_left;
}
// adding site
g.nodes.push({
id: 121086,
label: 'Tiphanie Merel',
type: 'image',
url: '',
page_url: 'https://research.pasteur.fr/en/?post_type=member&p=121086',
x: x_site,
y: y_site,
size: 10,
color: '#dddddd'
});
//link to content
g.edges.push({
id: 131782121086,
size: 0.5,
source: 131782,
target: 121086 });
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 4638) {
n.size = n.size + 8;
}
});
//link to content
g.edges.push({
id: 1317824638,
size: 0.5,
source: 131782,
target: 4638 });
//check if content already exist
if (x_node<0){
x_site = x_node + ((Math.random() * 2)-1) - offset_left;
}else{
x_site = x_node + ((Math.random() * 2)-1) + offset_left;
}
if (y_node<0){
y_site = y_node + ((Math.random() * 2)-1) - offset_left;
}else{
y_site = y_node + ((Math.random() * 2)-1) + offset_left;
}
// adding site
g.nodes.push({
id: 8333,
label: 'Joëlle Bignon-Topalovic',
type: 'image',
url: '',
page_url: 'https://research.pasteur.fr/en/?post_type=member&p=8333',
x: x_site,
y: y_site,
size: 10,
color: '#dddddd'
});
//link to content
g.edges.push({
id: 1317828333,
size: 0.5,
source: 131782,
target: 8333 });
//check if content already exist
if (x_node<0){
x_site = x_node + ((Math.random() * 2)-1) - offset_left;
}else{
x_site = x_node + ((Math.random() * 2)-1) + offset_left;
}
if (y_node<0){
y_site = y_node + ((Math.random() * 2)-1) - offset_left;
}else{
y_site = y_node + ((Math.random() * 2)-1) + offset_left;
}
// adding site
g.nodes.push({
id: 4550,
label: 'Caroline Eozenou',
type: 'image',
url: '',
page_url: 'https://research.pasteur.fr/en/?post_type=member&p=4550',
x: x_site,
y: y_site,
size: 10,
color: '#dddddd'
});
//link to content
g.edges.push({
id: 1317824550,
size: 0.5,
source: 131782,
target: 4550 });
//check if content already exist
if (x_node<0){
x_site = x_node + ((Math.random() * 2)-1) - offset_left;
}else{
x_site = x_node + ((Math.random() * 2)-1) + offset_left;
}
if (y_node<0){
y_site = y_node + ((Math.random() * 2)-1) - offset_left;
}else{
y_site = y_node + ((Math.random() * 2)-1) + offset_left;
}
// adding site
g.nodes.push({
id: 4551,
label: 'Kenneth McElreavey',
type: 'image',
url: 'https://research.pasteur.fr/wp-content/uploads/2015/07/research.pasteur.fr_fig44-150x150.jpg',
page_url: 'https://research.pasteur.fr/en/member/kenneth-mcelreavey/',
x: x_site,
y: y_site,
size: 10,
color: '#dddddd'
});
//link to content
g.edges.push({
id: 1317824551,
size: 0.5,
source: 131782,
target: 4551 });
//check if content already exist
if (x_node<0){
x_site = x_node + ((Math.random() * 2)-1) - offset_left;
}else{
x_site = x_node + ((Math.random() * 2)-1) + offset_left;
}
if (y_node<0){
y_site = y_node + ((Math.random() * 2)-1) - offset_left;
}else{
y_site = y_node + ((Math.random() * 2)-1) + offset_left;
}
// adding site
g.nodes.push({
id: 4547,
label: 'Anu Bashamboo',
type: 'image',
url: 'https://research.pasteur.fr/wp-content/uploads/2015/07/research.pasteur.fr_fig62-150x150.jpg',
page_url: 'https://research.pasteur.fr/en/member/anu-bashamboo/',
x: x_site,
y: y_site,
size: 10,
color: '#dddddd'
});
//link to content
g.edges.push({
id: 1317824547,
size: 0.5,
source: 131782,
target: 4547 });
// adding node
var x_node = Math.cos(2 * 1 * Math.PI / N) * 10;
var y_node = Math.sin(2 * 1 * Math.PI / N) * 10;
g.nodes.push({
id: 131773,
label: 'PROJECT: Control of expression of the human testis-determining gene SRY.',
x: x_node,
y: y_node,
type: 'image',
url: '',
page_url: 'https://research.pasteur.fr/en/project/control-of-expression-of-the-human-testis-determining-gene-sry/',
size: 35,
color: '#DDDDDD'
});
//link content to central post
g.edges.push({
id: 4638131773,
size: 0.5,
source: 4638,
target: 131773,
});
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 4547) {
n.size = n.size + 8;
}
});
//link to content
g.edges.push({
id: 1317734547,
size: 0.5,
source: 131773,
target: 4547 });
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 4551) {
n.size = n.size + 8;
}
});
//link to content
g.edges.push({
id: 1317734551,
size: 0.5,
source: 131773,
target: 4551 });
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 8333) {
n.size = n.size + 8;
}
});
//link to content
g.edges.push({
id: 1317738333,
size: 0.5,
source: 131773,
target: 8333 });
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 4638) {
n.size = n.size + 8;
}
});
//link to content
g.edges.push({
id: 1317734638,
size: 0.5,
source: 131773,
target: 4638 });
// adding node
var x_node = Math.cos(2 * 2 * Math.PI / N) * 10;
var y_node = Math.sin(2 * 2 * Math.PI / N) * 10;
g.nodes.push({
id: 40777,
label: 'PROJECT: Pathogenicity and resistance to Rift Valley Fever virus.',
x: x_node,
y: y_node,
type: 'image',
url: 'https://research.pasteur.fr/wp-content/uploads/2015/09/research_pasteur-pathogenicity-and-resistance-to-rift-valley-fever-virus-rift-150x150.jpg',
page_url: 'https://research.pasteur.fr/en/project/pathogenicity-and-resistance-to-rift-valley-fever-virus/',
size: 35,
color: '#DDDDDD'
});
//link content to central post
g.edges.push({
id: 463840777,
size: 0.5,
source: 4638,
target: 40777,
});
//check if content already exist
if (x_node<0){
x_site = x_node + ((Math.random() * 2)-1) - offset_left;
}else{
x_site = x_node + ((Math.random() * 2)-1) + offset_left;
}
if (y_node<0){
y_site = y_node + ((Math.random() * 2)-1) - offset_left;
}else{
y_site = y_node + ((Math.random() * 2)-1) + offset_left;
}
// adding site
g.nodes.push({
id: 4644,
label: 'Xavier Montagutelli',
type: 'image',
url: 'https://research.pasteur.fr/wp-content/uploads/2015/05/research_pasteur-xavier-montagutelli-xm-web-150x150.jpg',
page_url: 'https://research.pasteur.fr/en/member/xavier-montagutelli/',
x: x_site,
y: y_site,
size: 10,
color: '#dddddd'
});
//link to content
g.edges.push({
id: 407774644,
size: 0.5,
source: 40777,
target: 4644 });
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 4638) {
n.size = n.size + 8;
}
});
//link to content
g.edges.push({
id: 407774638,
size: 0.5,
source: 40777,
target: 4638 });
//check if content already exist
if (x_node<0){
x_site = x_node + ((Math.random() * 2)-1) - offset_left;
}else{
x_site = x_node + ((Math.random() * 2)-1) + offset_left;
}
if (y_node<0){
y_site = y_node + ((Math.random() * 2)-1) - offset_left;
}else{
y_site = y_node + ((Math.random() * 2)-1) + offset_left;
}
// adding site
g.nodes.push({
id: 4732,
label: 'Marie Flamand',
type: 'image',
url: 'https://research.pasteur.fr/wp-content/uploads/2015/05/research_pasteur-marie-flamand-photo-id-stamp-size-v2-150x150.jpg',
page_url: 'https://research.pasteur.fr/en/member/marie-flamand/',
x: x_site,
y: y_site,
size: 10,
color: '#dddddd'
});
//link to content
g.edges.push({
id: 407774732,
size: 0.5,
source: 40777,
target: 4732 });
//check if content already exist
if (x_node<0){
x_site = x_node + ((Math.random() * 2)-1) - offset_left;
}else{
x_site = x_node + ((Math.random() * 2)-1) + offset_left;
}
if (y_node<0){
y_site = y_node + ((Math.random() * 2)-1) - offset_left;
}else{
y_site = y_node + ((Math.random() * 2)-1) + offset_left;
}
// adding site
g.nodes.push({
id: 41813,
label: 'Eliette Bonnefoy, INSERM UMR-S1007',
type: 'image',
url: '',
page_url: 'https://research.pasteur.fr/en/epartner/eliette-bonnefoy-inserm-umr-s1007-universite-paris-descartes-sorbonne-paris-cite-paris-france/',
x: x_site,
y: y_site,
size: 10,
color: '#dddddd'
});
//link to content
g.edges.push({
id: 4077741813,
size: 0.5,
source: 40777,
target: 41813 });
// adding node
var x_node = Math.cos(2 * 3 * Math.PI / N) * 10;
var y_node = Math.sin(2 * 3 * Math.PI / N) * 10;
g.nodes.push({
id: 15570,
label: 'PROJECT: Identification of key components of the human sex-determination pathway. The DSD genome project.',
x: x_node,
y: y_node,
type: 'image',
url: '',
page_url: 'https://research.pasteur.fr/en/project/germ-cell-development-and-maintenance/',
size: 35,
color: '#DDDDDD'
});
//link content to central post
g.edges.push({
id: 463815570,
size: 0.5,
source: 4638,
target: 15570,
});
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 4551) {
n.size = n.size + 8;
}
});
//link to content
g.edges.push({
id: 155704551,
size: 0.5,
source: 15570,
target: 4551 });
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 4547) {
n.size = n.size + 8;
}
});
//link to content
g.edges.push({
id: 155704547,
size: 0.5,
source: 15570,
target: 4547 });
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 4638) {
n.size = n.size + 8;
}
});
//link to content
g.edges.push({
id: 155704638,
size: 0.5,
source: 15570,
target: 4638 });
//check if content already exist
if (x_node<0){
x_site = x_node + ((Math.random() * 2)-1) - offset_left;
}else{
x_site = x_node + ((Math.random() * 2)-1) + offset_left;
}
if (y_node<0){
y_site = y_node + ((Math.random() * 2)-1) - offset_left;
}else{
y_site = y_node + ((Math.random() * 2)-1) + offset_left;
}
// adding site
g.nodes.push({
id: 203455,
label: 'Somboon Wankanit',
type: 'image',
url: 'https://research.pasteur.fr/wp-content/uploads/2023/06/research_pasteur-somboon-wankanit-profile-150x150.jpg',
page_url: 'https://research.pasteur.fr/en/member/somboon-wankanit/',
x: x_site,
y: y_site,
size: 10,
color: '#dddddd'
});
//link to content
g.edges.push({
id: 15570203455,
size: 0.5,
source: 15570,
target: 203455 });
// adding node
var x_node = Math.cos(2 * 4 * Math.PI / N) * 10;
var y_node = Math.sin(2 * 4 * Math.PI / N) * 10;
g.nodes.push({
id: 6144,
label: 'TEAM: Human Developmental Genetics',
x: x_node,
y: y_node,
type: 'image',
url: 'https://research.pasteur.fr/wp-content/uploads/2015/06/research.pasteur.fr_humangeneticdev-150x150.jpg',
page_url: 'https://research.pasteur.fr/en/team/human-developmental-genetics/',
size: 35,
color: '#DDDDDD'
});
//link content to central post
g.edges.push({
id: 46386144,
size: 0.5,
source: 4638,
target: 6144,
});
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 4547) {
n.size = n.size + 8;
}
});
//link to content
g.edges.push({
id: 61444547,
size: 0.5,
source: 6144,
target: 4547 });
//check if content already exist
if (x_node<0){
x_site = x_node + ((Math.random() * 2)-1) - offset_left;
}else{
x_site = x_node + ((Math.random() * 2)-1) + offset_left;
}
if (y_node<0){
y_site = y_node + ((Math.random() * 2)-1) - offset_left;
}else{
y_site = y_node + ((Math.random() * 2)-1) + offset_left;
}
// adding site
g.nodes.push({
id: 7799,
label: 'Laurence Boutout',
type: 'image',
url: 'https://research.pasteur.fr/wp-content/uploads/2015/07/research.pasteur.fr_laurence-150x150.jpg',
page_url: 'https://research.pasteur.fr/en/member/laurence-boutout/',
x: x_site,
y: y_site,
size: 10,
color: '#dddddd'
});
//link to content
g.edges.push({
id: 61447799,
size: 0.5,
source: 6144,
target: 7799 });
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 4638) {
n.size = n.size + 8;
}
});
//link to content
g.edges.push({
id: 61444638,
size: 0.5,
source: 6144,
target: 4638 });
//check if content already exist
if (x_node<0){
x_site = x_node + ((Math.random() * 2)-1) - offset_left;
}else{
x_site = x_node + ((Math.random() * 2)-1) + offset_left;
}
if (y_node<0){
y_site = y_node + ((Math.random() * 2)-1) - offset_left;
}else{
y_site = y_node + ((Math.random() * 2)-1) + offset_left;
}
// adding site
g.nodes.push({
id: 149165,
label: 'Laurène Schlick',
type: 'image',
url: 'https://research.pasteur.fr/wp-content/uploads/2020/10/research_pasteur-enpaula-wildfrpaula-wild-laurene-150x150.png',
page_url: 'https://research.pasteur.fr/en/member/laurene-schlick/',
x: x_site,
y: y_site,
size: 10,
color: '#dddddd'
});
//link to content
g.edges.push({
id: 6144149165,
size: 0.5,
source: 6144,
target: 149165 });
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 203455) {
n.size = n.size + 8;
}
});
//link to content
g.edges.push({
id: 6144203455,
size: 0.5,
source: 6144,
target: 203455 });
//check if content already exist
if (x_node<0){
x_site = x_node + ((Math.random() * 2)-1) - offset_left;
}else{
x_site = x_node + ((Math.random() * 2)-1) + offset_left;
}
if (y_node<0){
y_site = y_node + ((Math.random() * 2)-1) - offset_left;
}else{
y_site = y_node + ((Math.random() * 2)-1) + offset_left;
}
// adding site
g.nodes.push({
id: 203457,
label: 'Maeva El Zaiat-Munsch',
type: 'image',
url: '',
page_url: 'https://research.pasteur.fr/en/member/maeva-el-zaiat-munsch/',
x: x_site,
y: y_site,
size: 10,
color: '#dddddd'
});
//link to content
g.edges.push({
id: 6144203457,
size: 0.5,
source: 6144,
target: 203457 });
//check if content already exist
// update node size depending on the amount of edges
g.nodes.forEach(function(n) {
if (n.id == 4551) {
n.size = n.size + 8;
}
});
//link to content
g.edges.push({
id: 61444551,
size: 0.5,
source: 6144,
target: 4551 });
var s = new sigma({
//container: document.getElementById('graph-main'),
graph: g,
renderer: {
// IMPORTANT:
// This works only with the canvas renderer, so the
// renderer type set as "canvas" is necessary here.
container: document.getElementById('graph-main'),
type: 'canvas'
},
settings: {
minNodeSize: 6,
maxNodeSize: 35,
mouseWheelEnabled: false,
font: 'Montserrat',
labelThreshold:25,
borderSize:1,
defaultNodeBorderColor: '#999',
sideMargin:25,
}
});
// We first need to save the original colors of our
// nodes and edges, like this:
s.graph.nodes().forEach(function(n) {
n.originalColor = n.color;
});
s.graph.edges().forEach(function(e) {
e.originalColor = e.color;
});
// When a node is clicked, we check for each node
// if it is a neighbor of the clicked one. If not,
// we set its color as grey, and else, it takes its
// original color.
// We do the same for the edges, and we only keep
// edges that have both extremities colored.
s.bind('clickNode', function(e) {
var nodeId = e.data.node.id,
toKeep = s.graph.neighbors(nodeId);
toKeep[nodeId] = e.data.node;
s.graph.nodes().forEach(function(n) {
if (toKeep[n.id])
n.color = '#35a9f5';
else
n.color = '#dddddd';
});
s.graph.edges().forEach(function(e) {
if (toKeep[e.source] && toKeep[e.target])
e.color = '#35a9f5';
else
e.color = '#dddddd';
});
// Since the data has been modified, we need to
// call the refresh method to make the colors
// update effective.
s.refresh();
});
// When the stage is clicked, we just color each
// node and edge with its original color.
s.bind('clickStage', function(e) {
s.graph.nodes().forEach(function(n) {
n.color = n.originalColor;
});
s.graph.edges().forEach(function(e) {
e.color = e.originalColor;
});
// Same as in the previous event:
s.refresh();
});
s.bind("doubleClickNode", function (e) {
$("#canvas-wrap, .sigma-scene, .sigma-mouse").val();
ajax_load_page( e.data.node.page_url );
});
var c = s.camera;
s.bind("rightClickStage", function (e) {
sigma.misc.animation.camera(c, {
ratio: c.ratio * c.settings('zoomingRatio')
}, {
duration: 200
});
});
// Configure the noverlap layout:
var noverlapListener = s.configNoverlap({
nodeMargin: 10,
scaleNodes: 0.3,
gridSize: 1,
easing: 'quadraticInOut', // animation transition function
duration: 4000 // animation duration. Long here for the purposes of this example only
});
// Bind the events:
noverlapListener.bind('start stop interpolate', function(e) {
//console.log(e.type);
if(e.type === 'start') {
//console.time('noverlap');
}
if(e.type === 'interpolate') {
//console.timeEnd('noverlap');
}
});
// Start the layout:
s.startNoverlap();
//s.refresh();
// Initialize the dragNodes plugin:
var dragListener = sigma.plugins.dragNodes(s, s.renderers[0]);
dragListener.bind('startdrag', function(event) {
});
dragListener.bind('drag', function(event) {
});
dragListener.bind('drop', function(event) {
});
dragListener.bind('dragend', function(event) {
});