Fish Chart

Fish plots are designed to visualize tumor evolution. This visualizationwas inspired by the fishplot package for R by Christopher A. Miller, Joshua McMichael, Ha X. Dang, Christopher A. Maher, Li Ding, Timothy J. Ley, Elaine R. Mardis & Richard K. Wilson


Example Color Themes

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Show Code

Tools

<head>
  <!-- Include the CanvasXpress library in your HTML file -->
  <link rel="stylesheet" href="https://www.canvasxpress.org/dist/canvasXpress.css" type="text/css"/>
  <script src="https://www.canvasxpress.org/dist/canvasXpress.min.js"></script>
</head>

<body>

  <!-- Create a canvas element for the chart with the desired dimensions -->
  <div>
    <canvas id="canvasId" width="600" height="600"></canvas>
  </div>


  <!-- Create a script to initialize the chart -->
  <script>

    // Create the data for the graph
    var data = {
       "y" : {
          "data" : [
            [99,1,3,1,3,80,0.1],
            [30,0,0,0,0,0,0],
            [2,0.1,2.5,0.9,0.9,76,0.005],
            [60,0,0,0,0,0,0],
            [0,0,0,0,0.1,60,0.001],
            [2,0,0,0,0,0,0],
            [1,1,1,10,20,15,0]
          ],
          "smps" : [0,34,69,187,334,505,530],
          "vars" : ["C1","C2","C3","C4","C5","C6","C7"]
       }
    }
    
    
    // Create the configuration for the graph
    var config = {
       "backgroundType":"panelSolidGradient",
       "colorSpectrum":[
          "#ffe4c4",
          "#ffb90f",
          "#cd6600"
       ],
       "colors":[
          "#888888",
          "#EF0000",
          "#8FFF40",
          "#FF6000",
          "#50FFAF",
          "#FFCF00",
          "#0070FF"
       ],
       "fishAxis":[
          "0",
          "34",
          "69",
          "187",
          "334",
          "505",
          "530",
          "650",
          "750"
       ],
       "fishParents":[
          "0",
          "1",
          "1",
          "1",
          "3",
          "4",
          "0"
       ],
       "fishSeparateIndependentClones":true,
       "fishShape":"spline",
       "fishTimepoints":[
          "0",
          "34",
          "69",
          "187",
          "334",
          "505",
          "530"
       ],
       "gradientOrientation":"horizontal",
       "graphType":"Fish",
       "legendKeyBackgroundBorderColor":"rgba(255,255,255,0)",
       "legendKeyBackgroundColor":"rgba(255,255,255,0)"
    }
    

    // Call the CanvasXpress function to create the graph
    var cX = new CanvasXpress("canvasId", data, config);


  </script>

</body>

library(canvasXpress)
y=read.table("https://www.canvasxpress.org/data/cX-fish4-dat.txt", header=TRUE, sep="\t", quote="", row.names=1, fill=TRUE, check.names=FALSE, stringsAsFactors=FALSE)
canvasXpress(
  data=y,
  backgroundType="panelSolidGradient",
  colorSpectrum=list("#ffe4c4", "#ffb90f", "#cd6600"),
  colors=list("#888888", "#EF0000", "#8FFF40", "#FF6000", "#50FFAF", "#FFCF00", "#0070FF"),
  fishAxis=list(0, 34, 69, 187, 334, 505, 530, 650, 750),
  fishParents=list(0, 1, 1, 1, 3, 4, 0),
  fishSeparateIndependentClones=TRUE,
  fishShape="spline",
  fishTimepoints=list(0, 34, 69, 187, 334, 505, 530),
  gradientOrientation="horizontal",
  graphType="Fish",
  legendKeyBackgroundBorderColor="rgba(255,255,255,0)",
  legendKeyBackgroundColor="rgba(255,255,255,0)"
)
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