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jacksonhenry3/index.html

Created July 10, 2012 14:44
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Phylogenetic tree
Raw
index.html
<!DOCTYPE html>
<html>
<head>
<meta http-equiv="Content-Type" content="text/html;charset=utf-8">
<title>Node-Link Tree</title>
<link href="interactive_tree.css" rel="stylesheet" type="text/css" />
<script type="text/javascript" src="http://mbostock.github.com/d3/d3.js?1.27.2"></script>
<script type="text/javascript" src="http://mbostock.github.com/d3/d3.layout.js?1.27.2"></script>
</head>
<body>
<div id="chart"></div>
<script type="text/javascript">
var w = 900,
h = 400,
i = 0,
duration = 700,
root;
var tree = d3.layout.tree()
.size([h, w - 160]);
var diagonal = d3.svg.diagonal()
.projection(function(d) { return [d.y, d.x]; });
var vis = d3.select("#chart").append("svg:svg")
.attr("width", w)
.attr("height", h)
.append("svg:g")
.attr("transform", "translate(40,0)");
d3.json("math_map_compact.json", function(json) {
json.x0 = 800;
json.y0 = 0;
update(root = json);
});
function update(source) {
// Compute the new tree layout.
var nodes = tree.nodes(root).reverse();
console.log(nodes)
// Update the nodes…
var node = vis.selectAll("g.node")
.data(nodes, function(d) { return d.id || (d.id = ++i); });
var nodeEnter = node.enter().append("svg:g")
.attr("class", "node")
.attr("transform", function(d) { return "translate(" + source.y0 + "," + source.x0 + ")"; });
//.style("opacity", 1e-6);
// Enter any new nodes at the parent's previous position.
nodeEnter.append("svg:circle")
//.attr("class", "node")
//.attr("cx", function(d) { return source.x0; })
//.attr("cy", function(d) { return source.y0; })
.attr("r", 4.5)
.style("fill", function(d) { return d._children ? "lightsteelblue" : "#fff"; })
.on("click", click);
nodeEnter.append("svg:text")
.attr("x", function(d) { return d._children ? -8 : 8; })
.attr("y", 3)
//.attr("fill","#ccc")
//.attr("transform", function(d) { return "translate(" + d.y + "," + d.x + ")"; })
.text(function(d) { return d.name; });
// Transition nodes to their new position.
nodeEnter.transition()
.duration(duration)
.attr("transform", function(d) { return "translate(" + d.y + "," + d.x + ")"; })
.style("opacity", 1)
.select("circle")
//.attr("cx", function(d) { return d.x; })
//.attr("cy", function(d) { return d.y; })
.style("fill", "lightsteelblue");
node.transition()
.duration(duration)
.attr("transform", function(d) { return "translate(" + d.y + "," + d.x + ")"; })
.style("opacity", 1);
node.exit().transition()
.duration(duration)
.attr("transform", function(d) { return "translate(" + source.y + "," + source.x + ")"; })
.style("opacity", 1e-6)
.remove();
/*
var nodeTransition = node.transition()
.duration(duration);
nodeTransition.select("circle")
.attr("cx", function(d) { return d.y; })
.attr("cy", function(d) { return d.x; })
.style("fill", function(d) { return d._children ? "lightsteelblue" : "#fff"; });
nodeTransition.select("text")
.attr("dx", function(d) { return d._children ? -8 : 8; })
.attr("dy", 3)
.style("fill", function(d) { return d._children ? "lightsteelblue" : "#5babfc"; });
// Transition exiting nodes to the parent's new position.
var nodeExit = node.exit();
nodeExit.select("circle").transition()
.duration(duration)
.attr("cx", function(d) { return source.y; })
.attr("cy", function(d) { return source.x; })
.remove();
nodeExit.select("text").transition()
.duration(duration)
.remove();
*/
// Update the links…
var link = vis.selectAll("path.link")
.data(tree.links(nodes), function(d) { return d.target.id; });
// Enter any new links at the parent's previous position.
link.enter().insert("svg:path", "g")
.attr("class", "link")
.attr("d", function(d) {
var o = {x: source.x0, y: source.y0};
return diagonal({source: o, target: o});
})
.transition()
.duration(duration)
.attr("d", diagonal);
// 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);
}
d3.select(self.frameElement).style("height", "410px");
</script>
</body>
</html>
Raw
interactive_tree.css
circle {
cursor: pointer;
fill: #fff;
stroke: steelblue;
stroke-width: 1.5px;
}
text {
font-size:10px;
}
path.link {
fill: none;
stroke: #ccc;
stroke-width: 1.5px;
}
Raw
math_map_compact.json
{
"name": "Life",
"children": [
{"name":"archea",
"children": [{
"name": "archea",
"children": []
}]
},
{"name":"eukaryote",
"children":[
{"name":"protista",
"children": []
},
{"name":"anamalia",
"children":[]
},
{"name":"plantae",
"children":[
{"name":"Anthocerotophyta",
"children": []
},
{"name":"Bryophyta",
"children":[]
},
{"name":"Marchantiophyta",
"children":[]
},
{"name":"Lycopodiophyta",
"children":[]
},
{"name":"Pteridophyta",
"children": []
},
{"name":"Pteridospermatophyta",
"children":[]
},
{"name":"Coniferophyta",
"children":[]
},
{"name":"Cycadophyta",
"children":[]
},
{"name":"Ginkgophyta",
"children":[]
},
{"name":"Gnetophyta",
"children":[]
},
{"name":"Anthophyta",
"children":[]
}
]
},
{"name":"fungi",
"children":[]
}
]
},
{"name":"bacteria",
"children":[{
"name": "bacteria",
"children": []
}]
}
]
}
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