Choords not visible ! #83

jnarayan81 · 2020-03-02T11:34:55Z

"GRCh37.json" and "fusion-genes.csv" files are located inside the same folder. Unfortunately, it does not display anything in browser(chrome/firefox). Did I miss something ?

<!DOCTYPE html>
<html>

  <head>
    <script src='https://cdn.rawgit.com/nicgirault/circosJS/v2/dist/circos.js'></script>
    <script src='https://cdnjs.cloudflare.com/ajax/libs/d3-queue/3.0.3/d3-queue.js'></script>
  </head>

  <body>
    <svg id='chart'></svg>

    <script>
      var circos = new Circos({
        container: '#chart'
      });
      var drawCircos = function(error, GRCh37, rawData) {

        data = rawData.map(function(d){
          return [
            d.source_id,
            parseInt(d.source_breakpoint) - 2000000,
            parseInt(d.source_breakpoint) + 2000000,
            d.target_id,
            parseInt(d.target_breakpoint) - 2000000,
            parseInt(d.target_breakpoint) + 2000000,
          ];
        });

        circos
          .layout(
            {
              ticks: {display: true},
            },
            GRCh37
          )
          .chord('gene-fusion', {color: '#fd6a62'}, data)
          .render();
      };

      queue()
        .defer(d3.json, "GRCh37.json")
        .defer(d3.csv, "fusion-genes.csv")
        .await(drawCircos);
    </script>
  </body>

</html>

The text was updated successfully, but these errors were encountered:

jnarayan81 · 2020-03-03T07:30:54Z

I am still wondering about the error. But, It worked following way:

<!DOCTYPE html>
<html>

<head>
    <script src="https://ajax.googleapis.com/ajax/libs/jquery/3.2.1/jquery.min.js"></script>
    <script src="https://cdnjs.cloudflare.com/ajax/libs/d3/4.11.0/d3.js"></script>
    <script src='https://cdn.rawgit.com/nicgirault/circosJS/v2/dist/circos.js'></script>
</head>

<body>

<script>
    var width = $(window).width() - 20,
        height = $(window).height() - 20

    var svg = d3.select("body")
        .append("svg")
        .attr('id', 'chart')
        .attr("width", width)
        .attr("height", height)

    var myCircos = new Circos({
        container: '#chart',
        width: width,
        height: height,
    })

    var layout_data = [
        {"len": 31, "color": "#8dd3c7", "label": "January", "id": "january"},
        {"len": 28, "color": "#ffffb3", "label": "February", "id": "february"},
        {"len": 31, "color": "#bebada", "label": "March", "id": "march"},
        {"len": 30, "color": "#fb8072", "label": "April", "id": "april"},
        {"len": 31, "color": "#80b1d3", "label": "May", "id": "may"},
        {"len": 30, "color": "#fdb462", "label": "June", "id": "june"},
        {"len": 31, "color": "#b3de69", "label": "July", "id": "july"},
        {"len": 31, "color": "#fccde5", "label": "August", "id": "august"},
        {"len": 30, "color": "#d9d9d9", "label": "September", "id": "september"},
        {"len": 31, "color": "#bc80bd", "label": "October", "id": "october"},
        {"len": 30, "color": "#ccebc5", "label": "November", "id": "november"},
        {"len": 31, "color": "#ffed6f", "label": "December", "id": "december"}
    ]

var layout_data2 = [
  {
    source: { id: 'january', start: 1, end: 12 },
    target: { id: 'april', start: 18, end: 20 }
  },
  {
    source: { id: 'february', start: 20, end: 28 },
    target: { id: 'december', start: 1, end: 13 }
  }
]

    var configuration = {
        innerRadius: 250,
        outerRadius: 300,
        cornerRadius: 10,
        gap: 0.04, // in radian
        labels: {
            display: true,
            position: 'center',
            size: '14px',
            color: '#000000',
            radialOffset: 20,
        },
        ticks: {
            display: true,
            color: 'grey',
            spacing: 10000000,
            labels: true,
            labelSpacing: 10,
            labelSuffix: 'Mb',
            labelDenominator: 1000000,
            labelDisplay0: true,
            labelSize: '10px',
            labelColor: '#000000',
            labelFont: 'default',
            majorSpacing: 5,
            size: {
                minor: 2,
                major: 5,
            }
        },
        clickCallback: null
    }

    myCircos.layout(layout_data, configuration)
    myCircos.chords('my-coord', layout_data2, configuration)
    myCircos.render()

</script>
</body>

</html>

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Choords not visible ! #83

Choords not visible ! #83

jnarayan81 commented Mar 2, 2020 •

edited

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jnarayan81 commented Mar 3, 2020

Choords not visible ! #83

Choords not visible ! #83

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jnarayan81 commented Mar 2, 2020 • edited Loading

jnarayan81 commented Mar 3, 2020

jnarayan81 commented Mar 2, 2020 •

edited

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