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



Color Themes


{
   "y" : {
      "data" : [
        [100,2,2,98],
        [45,0,0,0],
        [0,0,2,95],
        [0,0,1,40]
      ],
      "smps" : [0,30,75,150],
      "vars" : ["Founding","Subclone 1","Subclone 2","Subclone 3"]
   }
}
{
   "backgroundType" : "window",
   "backgroundWindow" : "#ffe4c4",
   "colors" : ["rgb(136,136,136)","rgb(239,0,0)","rgb(255,96,0)","rgb(255,207,0)","rgb(191,255,64)","rgb(80,255,175)","rgb(0,223,255)","rgb(0,112,255)","rgb(0,0,255)","rgb(0,0,143)"],
   "fishAxis" : ["0","150"],
   "fishCloneLabels" : ["TP53,MET","NF1","","8q+,6p-"],
   "fishParents" : ["0","1","1","3"],
   "fishShape" : "spline",
   "fishTimepoints" : ["0","30","75","150"],
   "graphType" : "Fish",
   "legendColumns" : "4",
   "legendPosition" : "bottom"
}
library(canvasXpress)
y=read.table("https://www.canvasxpress.org/data/cX-fish-dat.txt", header=TRUE, sep="\t", quote="", row.names=1, fill=TRUE, check.names=FALSE, stringsAsFactors=FALSE)
canvasXpress(
  data=y,
  backgroundType="window",
  backgroundWindow="#ffe4c4",
  colors=list("rgb(136,136,136)", "rgb(239,0,0)", "rgb(255,96,0)", "rgb(255,207,0)", "rgb(191,255,64)", "rgb(80,255,175)", "rgb(0,223,255)", "rgb(0,112,255)", "rgb(0,0,255)", "rgb(0,0,143)"),
  fishAxis=list(0, 150),
  fishCloneLabels=list("TP53,MET", "NF1", "", "8q+,6p-"),
  fishParents=list(0, 1, 1, 3),
  fishShape="spline",
  fishTimepoints=list(0, 30, 75, 150),
  graphType="Fish",
  legendColumns=4,
  legendPosition="bottom"
)