CRISPR Trendline

app.css

@import url(//fonts.googleapis.com/css?family=Karla);

svg {
  font-family: Karla;
}

.axis path,
.axis line {
  fill: none;
  stroke: #000;
  shape-rendering: crispEdges;
}

.axis text {
  fill: #000;
}

.axis .tick line {
  stroke: rgba(0, 0, 0, 0.1);
}

.area {
  stroke-width: 1;
}

.area.outer,
.legend .outer {
  fill: rgba(230, 230, 255, 0.8);
  stroke: rgba(216, 216, 255, 0.8);
}

.area.inner,
.legend .inner {
  fill: rgba(127, 127, 255, 0.8);
  stroke: rgba(96, 96, 255, 0.8);
}

.median-line,
.legend .median-line {
  fill: none;
  stroke: #000;
  stroke-width: 3;
}

.legend .legend-bg {
  fill: rgba(0, 0, 0, 0.5);
  stroke: rgba(0, 0, 0, 0.5);
}

.marker.client .marker-bg,
.marker.client path {
  fill: rgba(255, 127, 0, 0.8);
  stroke: rgba(255, 127, 0, 0.8);
  stroke-width: 3;
}

.marker.server .marker-bg,
.marker.server path {
  fill: rgba(0, 153, 51, 0.8);
  stroke: rgba(0, 153, 51, 0.8);
  stroke-width: 3;
}

.marker path {
  fill: none;
}

.legend text,
.marker text {
  fill: #fff;
  font-weight: bold;
}

.marker text {
  text-anchor: middle;
}

app.js

function addAxesAndLegend (svg, xAxis, yAxis, margin, chartWidth, chartHeight) {
  var legendWidth  = 200,
      legendHeight = 100;

  // clipping to make sure nothing appears behind legend
  svg.append('clipPath')
    .attr('id', 'axes-clip')
    .append('polygon')
      .attr('points', (-margin.left)                 + ',' + (-margin.top)                 + ' ' +
                      (chartWidth - legendWidth - 1) + ',' + (-margin.top)                 + ' ' +
                      (chartWidth - legendWidth - 1) + ',' + legendHeight                  + ' ' +
                      (chartWidth + margin.right)    + ',' + legendHeight                  + ' ' +
                      (chartWidth + margin.right)    + ',' + (chartHeight + margin.bottom) + ' ' +
                      (-margin.left)                 + ',' + (chartHeight + margin.bottom));

  var axes = svg.append('g')
    .attr('clip-path', 'url(#axes-clip)');

  axes.append('g')
    .attr('class', 'x axis')
    .attr('transform', 'translate(0,' + chartHeight + ')')
    .call(xAxis);

  axes.append('g')
    .attr('class', 'y axis')
    .call(yAxis)
    .append('text')
      .attr('transform', 'rotate(-90)')
      .attr('y', 6)
      .attr('dy', '.71em')
      .style('text-anchor', 'end')
      .text('Time (s)');

  var legend = svg.append('g')
    .attr('class', 'legend')
    .attr('transform', 'translate(' + (chartWidth - legendWidth) + ', 0)');

  legend.append('rect')
    .attr('class', 'legend-bg')
    .attr('width',  legendWidth)
    .attr('height', legendHeight);

  legend.append('rect')
    .attr('class', 'outer')
    .attr('width',  75)
    .attr('height', 20)
    .attr('x', 10)
    .attr('y', 10);

  legend.append('text')
    .attr('x', 115)
    .attr('y', 25)
    .text('5% - 95%');

  legend.append('rect')
    .attr('class', 'inner')
    .attr('width',  75)
    .attr('height', 20)
    .attr('x', 10)
    .attr('y', 40);

  legend.append('text')
    .attr('x', 115)
    .attr('y', 55)
    .text('25% - 75%');

  legend.append('path')
    .attr('class', 'median-line')
    .attr('d', 'M10,80L85,80');

  legend.append('text')
    .attr('x', 115)
    .attr('y', 85)
    .text('Median');
}

function drawPaths (svg, data, x, y) {
  var upperOuterArea = d3.svg.area()
    .interpolate('basis')
    .x (function (d) { return x(d.date) || 1; })
    .y0(function (d) { return y(d.pct95); })
    .y1(function (d) { return y(d.pct75); });

  var upperInnerArea = d3.svg.area()
    .interpolate('basis')
    .x (function (d) { return x(d.date) || 1; })
    .y0(function (d) { return y(d.pct75); })
    .y1(function (d) { return y(d.pct50); });

  var medianLine = d3.svg.line()
    .interpolate('basis')
    .x(function (d) { return x(d.date); })
    .y(function (d) { return y(d.pct50); });

  var lowerInnerArea = d3.svg.area()
    .interpolate('basis')
    .x (function (d) { return x(d.date) || 1; })
    .y0(function (d) { return y(d.pct50); })
    .y1(function (d) { return y(d.pct25); });

  var lowerOuterArea = d3.svg.area()
    .interpolate('basis')
    .x (function (d) { return x(d.date) || 1; })
    .y0(function (d) { return y(d.pct25); })
    .y1(function (d) { return y(d.pct05); });

  svg.datum(data);

  svg.append('path')
    .attr('class', 'area upper outer')
    .attr('d', upperOuterArea)
    .attr('clip-path', 'url(#rect-clip)');

  svg.append('path')
    .attr('class', 'area lower outer')
    .attr('d', lowerOuterArea)
    .attr('clip-path', 'url(#rect-clip)');

  svg.append('path')
    .attr('class', 'area upper inner')
    .attr('d', upperInnerArea)
    .attr('clip-path', 'url(#rect-clip)');

  svg.append('path')
    .attr('class', 'area lower inner')
    .attr('d', lowerInnerArea)
    .attr('clip-path', 'url(#rect-clip)');

  svg.append('path')
    .attr('class', 'median-line')
    .attr('d', medianLine)
    .attr('clip-path', 'url(#rect-clip)');
}

function addMarker (marker, svg, chartHeight, x) {
  var radius = 32,
      xPos = x(marker.date) - radius - 3,
      yPosStart = chartHeight - radius - 3,
      yPosEnd = (marker.type === 'Client' ? 80 : 160) + radius - 3;

  var markerG = svg.append('g')
    .attr('class', 'marker '+marker.type.toLowerCase())
    .attr('transform', 'translate(' + xPos + ', ' + yPosStart + ')')
    .attr('opacity', 0);

  markerG.transition()
    .duration(1000)
    .attr('transform', 'translate(' + xPos + ', ' + yPosEnd + ')')
    .attr('opacity', 1);

  markerG.append('path')
    .attr('d', 'M' + radius + ',' + (chartHeight-yPosStart) + 'L' + radius + ',' + (chartHeight-yPosStart))
    .transition()
      .duration(1000)
      .attr('d', 'M' + radius + ',' + (chartHeight-yPosEnd) + 'L' + radius + ',' + (radius*2));

  markerG.append('circle')
    .attr('class', 'marker-bg')
    .attr('cx', radius)
    .attr('cy', radius)
    .attr('r', radius);

  markerG.append('text')
    .attr('x', radius)
    .attr('y', radius*0.9)
    .text(marker.type);

  markerG.append('text')
    .attr('x', radius)
    .attr('y', radius*1.5)
    .text(marker.version);
}

function startTransitions (svg, chartWidth, chartHeight, rectClip, markers, x) {
  rectClip.transition()
    .duration(1000*markers.length)
    .attr('width', chartWidth);

  markers.forEach(function (marker, i) {
    setTimeout(function () {
      addMarker(marker, svg, chartHeight, x);
    }, 1000 + 500*i);
  });
}

function makeChart (data, markers) {
  var svgWidth  = 960,
      svgHeight = 500,
      margin = { top: 20, right: 20, bottom: 40, left: 40 },
      chartWidth  = svgWidth  - margin.left - margin.right,
      chartHeight = svgHeight - margin.top  - margin.bottom;

  var x = d3.time.scale().range([0, chartWidth])
            .domain(d3.extent(data, function (d) { return d.date; })),
      y = d3.scale.linear().range([chartHeight, 0])
            .domain([0, d3.max(data, function (d) { return d.pct95; })]);

  var xAxis = d3.svg.axis().scale(x).orient('bottom')
                .innerTickSize(-chartHeight).outerTickSize(0).tickPadding(10),
      yAxis = d3.svg.axis().scale(y).orient('left')
                .innerTickSize(-chartWidth).outerTickSize(0).tickPadding(10);

  var svg = d3.select('body').append('svg')
    .attr('width',  svgWidth)
    .attr('height', svgHeight)
    .append('g')
      .attr('transform', 'translate(' + margin.left + ',' + margin.top + ')');

  // clipping to start chart hidden and slide it in later
  var rectClip = svg.append('clipPath')
    .attr('id', 'rect-clip')
    .append('rect')
      .attr('width', 0)
      .attr('height', chartHeight);

  addAxesAndLegend(svg, xAxis, yAxis, margin, chartWidth, chartHeight);
  drawPaths(svg, data, x, y);
  startTransitions(svg, chartWidth, chartHeight, rectClip, markers, x);
}

var parseDate  = d3.time.format('%Y-%m-%d').parse;
d3.json('data.json', function (error, rawData) {
  if (error) {
    console.error(error);
    return;
  }

  var data = rawData.map(function (d) {
    return {
      date:  parseDate(d.date),
      pct05: d.pct05 / 1000,
      pct25: d.pct25 / 1000,
      pct50: d.pct50 / 1000,
      pct75: d.pct75 / 1000,
      pct95: d.pct95 / 1000
    };
  });

  d3.json('markers.json', function (error, markerData) {
    if (error) {
      console.error(error);
      return;
    }

    var markers = markerData.map(function (marker) {
      return {
        date: parseDate(marker.date),
        type: marker.type,
        version: marker.version
      };
    });

    makeChart(data, markers);
  });
});

data.json

[
  {
    "date": "2014-08-01",
    "pct05": 5350,
    "pct25": 6756,
    "pct50": 7819,
    "pct75": 9284,
    "pct95": 13835
  },
  {
    "date": "2014-08-02",
    "pct05": 4439,
    "pct25": 5584,
    "pct50": 6554,
    "pct75": 8016,
    "pct95": 12765
  },
  {
    "date": "2014-08-03",
    "pct05": 4247,
    "pct25": 5419,
    "pct50": 6332,
    "pct75": 7754,
    "pct95": 12236
  },
  {
    "date": "2014-08-04",
    "pct05": 3293,
    "pct25": 4414,
    "pct50": 5191,
    "pct75": 6491,
    "pct95": 10325
  },
  {
    "date": "2014-08-05",
    "pct05": 3942,
    "pct25": 5134,
    "pct50": 6069,
    "pct75": 7501,
    "pct95": 11685
  },
  {
    "date": "2014-08-06",
    "pct05": 2744,
    "pct25": 5508,
    "pct50": 6879,
    "pct75": 9221,
    "pct95": 17239
  },
  {
    "date": "2014-08-07",
    "pct05": 1807,
    "pct25": 3019,
    "pct50": 4119,
    "pct75": 5656,
    "pct95": 8851
  },
  {
    "date": "2014-08-08",
    "pct05": 1855,
    "pct25": 3386,
    "pct50": 4473,
    "pct75": 5915,
    "pct95": 10580
  },
  {
    "date": "2014-08-09",
    "pct05": 1830,
    "pct25": 3202,
    "pct50": 4233,
    "pct75": 5559,
    "pct95": 8930
  },
  {
    "date": "2014-08-10",
    "pct05": 1828,
    "pct25": 3195,
    "pct50": 4304,
    "pct75": 5482,
    "pct95": 9189
  },
  {
    "date": "2014-08-11",
    "pct05": 2246,
    "pct25": 3929,
    "pct50": 5326,
    "pct75": 7077,
    "pct95": 11648
  },
  {
    "date": "2014-08-12",
    "pct05": 2051,
    "pct25": 3662,
    "pct50": 4849,
    "pct75": 6194,
    "pct95": 10078
  },
  {
    "date": "2014-08-13",
    "pct05": 1700,
    "pct25": 3075,
    "pct50": 4068,
    "pct75": 5259,
    "pct95": 9789
  },
  {
    "date": "2014-08-14",
    "pct05": 2161,
    "pct25": 3891,
    "pct50": 5262,
    "pct75": 6924,
    "pct95": 11612
  },
  {
    "date": "2014-08-15",
    "pct05": 1765,
    "pct25": 3190,
    "pct50": 4388,
    "pct75": 5822,
    "pct95": 9433
  },
  {
    "date": "2014-08-16",
    "pct05": 2036,
    "pct25": 3756,
    "pct50": 4775,
    "pct75": 6158,
    "pct95": 9999
  },
  {
    "date": "2014-08-17",
    "pct05": 2079,
    "pct25": 3561,
    "pct50": 4753,
    "pct75": 6124,
    "pct95": 9807
  },
  {
    "date": "2014-08-18",
    "pct05": 2108,
    "pct25": 3576,
    "pct50": 4818,
    "pct75": 6344,
    "pct95": 10235
  },
  {
    "date": "2014-08-19",
    "pct05": 2143,
    "pct25": 3792,
    "pct50": 5073,
    "pct75": 6772,
    "pct95": 11338
  },
  {
    "date": "2014-08-20",
    "pct05": 2086,
    "pct25": 3801,
    "pct50": 5073,
    "pct75": 6688,
    "pct95": 12394
  },
  {
    "date": "2014-08-21",
    "pct05": 1767,
    "pct25": 3253,
    "pct50": 4282,
    "pct75": 5563,
    "pct95": 9167
  },
  {
    "date": "2014-08-22",
    "pct05": 1756,
    "pct25": 3047,
    "pct50": 3950,
    "pct75": 5006,
    "pct95": 7948
  },
  {
    "date": "2014-08-23",
    "pct05": 2123,
    "pct25": 3755,
    "pct50": 5173,
    "pct75": 7243,
    "pct95": 12338
  },
  {
    "date": "2014-08-24",
    "pct05": 1967,
    "pct25": 3404,
    "pct50": 4529,
    "pct75": 5970,
    "pct95": 9897
  },
  {
    "date": "2014-08-25",
    "pct05": 1537,
    "pct25": 2612,
    "pct50": 3394,
    "pct75": 4279,
    "pct95": 7104
  },
  {
    "date": "2014-08-26",
    "pct05": 2182,
    "pct25": 3958,
    "pct50": 5505,
    "pct75": 7642,
    "pct95": 12707
  },
  {
    "date": "2014-08-27",
    "pct05": 1932,
    "pct25": 3366,
    "pct50": 4526,
    "pct75": 6086,
    "pct95": 9930
  },
  {
    "date": "2014-08-28",
    "pct05": 1268,
    "pct25": 2344,
    "pct50": 3256,
    "pct75": 4215,
    "pct95": 6673
  },
  {
    "date": "2014-08-29",
    "pct05": 1225,
    "pct25": 2239,
    "pct50": 3033,
    "pct75": 4111,
    "pct95": 7601
  },
  {
    "date": "2014-08-30",
    "pct05": 1393,
    "pct25": 2432,
    "pct50": 3417,
    "pct75": 4710,
    "pct95": 8798
  },
  {
    "date": "2014-08-31",
    "pct05": 1175,
    "pct25": 2020,
    "pct50": 2768,
    "pct75": 3889,
    "pct95": 7744
  },
  {
    "date": "2014-09-01",
    "pct05": 989,
    "pct25": 1655,
    "pct50": 2218,
    "pct75": 3167,
    "pct95": 6018
  },
  {
    "date": "2014-09-02",
    "pct05": 1249,
    "pct25": 2069,
    "pct50": 2738,
    "pct75": 3938,
    "pct95": 7574
  },
  {
    "date": "2014-09-03",
    "pct05": 936,
    "pct25": 1510,
    "pct50": 1968,
    "pct75": 2700,
    "pct95": 5215
  },
  {
    "date": "2014-09-04",
    "pct05": 1264,
    "pct25": 2039,
    "pct50": 2657,
    "pct75": 3646,
    "pct95": 7042
  },
  {
    "date": "2014-09-05",
    "pct05": 1305,
    "pct25": 2106,
    "pct50": 2745,
    "pct75": 3766,
    "pct95": 7273
  },
  {
    "date": "2014-09-06",
    "pct05": 798,
    "pct25": 1288,
    "pct50": 1678,
    "pct75": 2303,
    "pct95": 4448
  },
  {
    "date": "2014-09-07",
    "pct05": 1314,
    "pct25": 2120,
    "pct50": 2763,
    "pct75": 3791,
    "pct95": 7321
  },
  {
    "date": "2014-09-08",
    "pct05": 1042,
    "pct25": 1681,
    "pct50": 2191,
    "pct75": 3007,
    "pct95": 5806
  }
]

index.html

<!DOCTYPE html>
<html>
  <head>
    <meta charset="utf-8">
    <title>Trend Chart (Area + Line)</title>
    <link rel="stylesheet" href="app.css">
  </head>

  <body>
  </body>

  <script src="http://d3js.org/d3.v3.js"></script>
  <script src="app.js"></script>
</html>

markers.json

[
  {
    "date": "2014-08-06",
    "type": "Client",
    "version": "Jennifer Doudna, Emmanuelle Charpentier, and Martin Jinek of the University of California, Berkeley, publish a landmark paper demonstrating the use of CRISPR/Cas9 to edit DNA at specific sites. (0 articles in the 14 days following the announcement)"
  },
  {
    "date": "2014-08-20",
    "type": "Client",
    "version": "February 15, 2013 – Feng Zhang of Harvard University publishes a paper outlining the use of CRISPR to edit the genomes of both mice and humans. (0 articles)"
  },
  {
    "date": "2014-08-27",
    "type": "Server",
    "version": "3.5"
  },
  {
    "date": "2014-09-03",
    "type": "Client",
    "version": "2.2"
  }
]