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vinnyoodles/tree.html

Last active March 28, 2018 20:41
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Interactive NGS Simulator Tree
Raw
tree.html
<!DOCTYPE html>
<html lang="en">
<head>
<meta charset="utf-8">
<title>Tree Example</title>
<style>
.node {
cursor: pointer;
}
.node circle {
fill: #fff;
stroke: steelblue;
stroke-width: 3px;
}
.node text {
font: 12px sans-serif;
}
.link {
fill: none;
stroke: #ccc;
stroke-width: 2px;
}
</style>
</head>
<body>
<!-- load the d3.js library -->
<script src="https://cdnjs.cloudflare.com/ajax/libs/d3/3.0.0/d3.min.js"></script>
<script>
var sims = {"454Sim":{"name":"454Sim"},"ART":{"name":"ART"},"ArtificialFastqGenerator":{"name":"ArtificialFastqGenerator"},"BEAR":{"name":"BEAR"},"CuReSim":{"name":"CuReSim"},"DWGSIM":{"name":"DWGSIM"},"EAGLE":{"name":"EAGLE"},"FASTQSim":{"name":"FASTQSim"},"Flowsim":{"name":"Flowsim"},"GemSim":{"name":"GemSim"},"Grinder":{"name":"Grinder"},"Mason":{"name":"Mason"},"MetaSim":{"name":"MetaSim"},"NeSSM":{"name":"NeSSM"},"pbsim":{"name":"pbsim"},"pIRS":{"name":"pIRS"},"ReadSim":{"name":"ReadSim"},"simhtsd":{"name":"simhtsd"},"simNGS":{"name":"simNGS"},"SimSeq":{"name":"SimSeq"},"SInC":{"name":"SInC"},"wgsim":{"name":"wgsim"},"XS":{"name":"XS"}}
function setParent(arr, parent) {
return arr.slice(0).map(function(obj) {
return Object.assign({ parent: parent }, obj);
});
}
var treeData = window.treeData = [{
"children": [{
"name": "Reference sequence",
"parent": "null",
"state": false,
"_children": [{
"name": "Genomics",
"_children": [{
"parent": "Genomics",
"name": "Genomic variants",
"_children": [
{ "name": "IonTorrent", "_children": setParent([sims.CuReSim], "Genomic variants")},
{ "name": "SOLiD", "_children": setParent([sims.ART, sims.CuReSim], "Genomic variants")},
{ "name": "PacBio", "_children": setParent([sims.pbsim], "Genomic variants")},
{ "name": "Sanger", "_children": setParent([sims.MetaSim], "Genomic variants")},
{ "name": "Illumina", "_children": setParent([sims.ART, sims.AFG, sims.MetaSim, sims.simhtsd, sims.simNGS], "Genomic variants")},
{ "name": "454", "_children": setParent([sims['454sim'], sims.ART, sims.CuReSim, sims.Flowsim, sims.MetaSim, sims.simhtsd], "Genomic variants")},
]
}, {
"parent": "Genomics",
"name": "No genomic variants",
"_children": [
{ "name": "IonTorrent", "_children":setParent([sims.BEAR, sims.EAGLE, sims.DWGSIM, sims.FASTQSim], "No genomic variants")},
{ "name": "Nanopore", "_children":setParent([sims.ReadSim], "No genomic variants")},
{ "name": "SOLiD", "_children":setParent([sims.DWGSIM, sims.FASTQSim, sims.wgsim], "No genomic variants")},
{ "name": "PacBio", "_children":setParent([sims.EAGLE, sims.FASTQSim, sims.ReadSim], "No genomic variants")},
{ "name": "Sanger", "_children":setParent([sims.Grinder, sims.Mason], "No genomic variants")},
{ "name": "Illumina", "_children":setParent([sims.BEAR, sims.DWGSIM, sims.EAGLE, sims.FASTQSim, sims.GemSim, sims.Grinder, sims.Mason, sims.pIRS, sims.SimSeq, sims.SInC, sims.wgsim], "No genomic variants")},
{ "name": "454", "_children":setParent([sims.BEAR, sims.EAGLE, sims.GemSim, sims.Grinder, sims.Mason], "No genomic variants")},
]
}]
}, {
"name": "Metagenomics",
"_children": [{
"parent": "Metagenomics",
"name": "Metagenomic variants",
"_children": [
{ "name": "Sanger", "_children": setParent([sims.MetaSim], "Metagenomic variants")},
{ "name": "Illumina", "_children": setParent([sims.MetaSim], "Metagenomic variants")},
{ "name": "454", "_children": setParent([sims.MetaSim], "Metagenomic variants")},
]
}, {
"parent": "Metagenomics",
"name": "No metagenomic variants",
"_children": [
{ "name": "Illumina" , "_children":setParent([sims.BEAR, sims.FASTQSim, sims.GemSim, sims.Grinder, sims.Mason, sims.NeSSM, sims.pIRS], "No metagenomic variants")},
{ "name": "IonTorrent" , "_children":setParent([sims.BEAR, sims.FASTQSim], "No metagenomic variants")},
{ "name": "454" , "_children":setParent([sims.BEAR, sims.GemSim, sims.Grinder, sims.Mason, sims.NeSSM], "No metagenomic variants")},
{ "name": "Sanger" , "_children":setParent([sims.Grinder], "No metagenomic variants")},
{ "name": "SOLiD" , "_children":setParent([sims.FASTQSim], "No metagenomic variants")},
{ "name": "PacBio" , "_children":setParent([sims.FASTQSim], "No metagenomic variants")},
]
}]
}]
}, {
"name": "No reference sequence",
"state": false,
"_children": [
{ "name": "454" , "_children": setParent([sims.XS], "454")},
{ "name": "IonTorrent" , "_children": setParent([sims.XS], "IonTorrent")},
{ "name": "Illumina" , "_children": setParent([sims.XS], "Illumina")},
{ "name": "SOLiD" , "_children": setParent([sims.XS], "SOLiD")},
]
}]
}];
// ************** Generate the tree diagram *****************
var margin = {top: 200, right: 200, bottom: 200, left: 200},
width = 1200 - margin.right - margin.left,
height = 800 - margin.top - margin.bottom;
var i = 0,
duration = 750,
root;
var tree = d3.layout.tree()
.size([height, width]);
var diagonal = d3.svg.diagonal()
.projection(function(d) { return [d.y, d.x]; });
var svg = d3.select("body").append("svg")
.attr("width", width + margin.right + margin.left)
.attr("height", height + margin.top + margin.bottom)
.append("g")
.attr("transform", "translate(" + margin.left + "," + margin.top + ")");
root = treeData[0];
root.x0 = height / 2;
root.y0 = 0;
update(root);
d3.select(self.frameElement).style("height", "500px");
function update(source) {
// Compute the new tree layout.
var nodes = tree.nodes(root).reverse(),
links = tree.links(nodes);
// Normalize for fixed-depth.
nodes.forEach(function(d) { d.y = d.depth * 180; });
// Update the nodes…
var node = svg.selectAll("g.node")
.data(nodes, function(d) { return d.id || (d.id = ++i); });
// Enter any new nodes at the parent's previous position.
var nodeEnter = node.enter().append("g")
.attr("class", "node")
.attr("transform", function(d) { return "translate(" + source.y0 + "," + source.x0 + ")"; })
.on("click", click);
nodeEnter.append("circle")
.attr("r", 1e-6)
.style("fill", function(d) { return d._children ? "lightsteelblue" : "#fff"; });
nodeEnter.append("text")
.attr("x", function(d) { return d.children || d._children ? -13 : 13; })
.attr("dy", ".35em")
.attr("text-anchor", function(d) { return d.children || d._children ? "end" : "start"; })
.text(function(d) { return d.name; })
.style("fill-opacity", 1e-6);
// Transition nodes to their new position.
var nodeUpdate = node.transition()
.duration(duration)
.attr("transform", function(d) { return "translate(" + d.y + "," + d.x + ")"; });
nodeUpdate.select("circle")
.attr("r", 10)
.style("fill", function(d) { return d._children ? "lightsteelblue" : "#fff"; });
nodeUpdate.select("text")
.style("fill-opacity", 1);
// Transition exiting nodes to the parent's new position.
var nodeExit = node.exit().transition()
.duration(duration)
.attr("transform", function(d) { return "translate(" + source.y + "," + source.x + ")"; })
.remove();
nodeExit.select("circle")
.attr("r", 1e-6);
nodeExit.select("text")
.style("fill-opacity", 1e-6);
// Update the links…
var link = svg.selectAll("path.link")
.data(links, function(d) { return d.target.id; });
// Enter any new links at the parent's previous position.
link.enter().insert("path", "g")
.attr("class", "link")
.attr("d", function(d) {
var o = {x: source.x0, y: source.y0};
return diagonal({source: o, target: o});
});
// Transition links to their new position.
link.transition()
.duration(duration)
.attr("d", diagonal);
// Transition exiting nodes to the parent's new position.
link.exit().transition()
.duration(duration)
.attr("d", function(d) {
var o = {x: source.x, y: source.y};
return diagonal({source: o, target: o});
})
.remove();
// Stash the old positions for transition.
nodes.forEach(function(d) {
d.x0 = d.x;
d.y0 = d.y;
});
}
// Toggle children on click.
function click(d) {
if (d.children) {
d._children = d.children;
d.children = null;
} else {
d.children = d._children;
d._children = null;
}
update(d);
}
</script>
</body>
</html>
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