Tumor evolution in breast cancer pre & post neoadjuvant treatment.

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

Aa Aa Aa Aa Aa Aa Aa Aa Aa Aa

<html>

  <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>

      // Use a data frame (2D-array) for the graph
      var data = [
        [ "Id", "S1", "S2", "S3", "S4"],
        [ "Primary", 100, 98, 46, 1],
        [ "Post-AI", 100, 44, 1, 55 ]
      ];

      // Create the configuration for the graph
      var config = {
         "backgroundType" : "panelSolidGradient",
         "colorSpectrum" : ["#ffe4c4","#ffb90f","#cd6600"],
         "colors" : ["#1B9E77","#D95F02","#7570B3","#E7298A"],
         "fishAxis" : [0,120],
         "fishAxisLabels" : ["Primary","Post-AI"],
         "fishParents" : [0,1,2,1],
         "fishShape" : "polygon",
         "fishTimepoints" : [0,120],
         "gradientOrientation" : "horizontal",
         "graphType" : "Fish",
         "legendKeyBackgroundBorderColor" : "rgba(255,255,255,0)",
         "legendKeyBackgroundColor" : "rgba(255,255,255,0)",
         "title" : "BRC32",
         "xAxis": ["S1","S2","S3","S4"]
      }

      // Event used to create graph (optional)
      var events = false


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

      
    </script>

  </body>

</html>

<html>

  <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" : [
              [100,100],
              [98,44],
              [46,1],
              [1,55]
            ],
            "smps" : ["Primary","Post-AI"],
            "vars" : ["S1","S2","S3","S4"]
         }
      }

      // Create the configuration for the graph
      var config = {
         "backgroundType" : "panelSolidGradient",
         "colorSpectrum" : ["#ffe4c4","#ffb90f","#cd6600"],
         "colors" : ["#1B9E77","#D95F02","#7570B3","#E7298A"],
         "fishAxis" : [0,120],
         "fishAxisLabels" : ["Primary","Post-AI"],
         "fishParents" : [0,1,2,1],
         "fishShape" : "polygon",
         "fishTimepoints" : [0,120],
         "gradientOrientation" : "horizontal",
         "graphType" : "Fish",
         "legendKeyBackgroundBorderColor" : "rgba(255,255,255,0)",
         "legendKeyBackgroundColor" : "rgba(255,255,255,0)",
         "title" : "BRC32",
         "xAxis": ["S1","S2","S3","S4"]
      }

      // Event used to create graph (optional)
      var events = false


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

      
    </script>

  </body>

</html>

library(canvasXpress)
y=read.table("https://www.canvasxpress.org/data/r/cX-fish3-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("#1B9E77", "#D95F02", "#7570B3", "#E7298A"),
  fishAxis=list(0, 120),
  fishAxisLabels=list("Primary", "Post-AI"),
  fishParents=list(0, 1, 2, 1),
  fishShape="polygon",
  fishTimepoints=list(0, 120),
  gradientOrientation="horizontal",
  graphType="Fish",
  legendKeyBackgroundBorderColor="rgba(255,255,255,0)",
  legendKeyBackgroundColor="rgba(255,255,255,0)",
  title="BRC32",
  xAxis=list("S1", "S2", "S3", "S4")
)