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Iobio.viz Alignment Chart
Raw
readme.md

An alignment chart that takes read positions and generates an efficient pileup

Raw
index.html
<!DOCTYPE html>
<html>
<head>
<script src="https://cdnjs.cloudflare.com/ajax/libs/d3/3.5.5/d3.min.js" charset="utf-8"></script>
<script src="http://iobio.io/public/js/iobio.viz.min.js"></script>
<link rel="stylesheet" type="text/css" href="http://iobio.io/public/css/iobio.viz.min.css">
<style type="text/css">
body {
font-family: "Helvetica Neue", Helvetica, Arial, sans-serif;
margin: auto;
position: relative;
width: 960px;
}
#alignment-viz .iobio-alignment polygon { fill: rgb(120,176,194); }
</style>
</head>
<body>
<div id="alignment-viz"></div>
<script>
var m = [30, 60, 44, 70],
w = 960,
h = 500;
d3.json('reads.json', function(data) {
var pileup = iobio.viz.layout.pileup().sort(null).size(w + m[1] + m[3]);
var selection = d3.select("#alignment-viz").datum( pileup(data) );
var chart = iobio.viz.alignment()
.width(w)
.height(h)
.margin({top: m[0], right: m[1], bottom: m[2], left:m[3]})
.xValue(function(d) { return d.x; })
.yValue(function(d) { return d.y; })
.wValue(function(d) { return d.w; })
.margin({top: m[0], right: m[1], bottom: m[2], left:m[3]})
.id(function(d) { return 'read-' + d.data.id; })
.tooltip(function(d) { return "id: " + d.data.id + "<br/>" + "pos: " + d.data.start + ' - ' + d.data.end })
chart(selection);
});
</script>
</body>
</html>
Raw
reads.json
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