D3 Examples - genome browser

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<!DOCTYPE html>
<head>
  <meta charset="utf-8">
  <script src="https://cdnjs.cloudflare.com/ajax/libs/d3/3.5.5/d3.min.js"></script>
  <script src="//d3js.org/d3.v3.min.js"></script>
  <script src="https://labratrevenge.com/d3-tip/javascripts/d3.tip.v0.6.3.js"></script>
    <style>
    body { 
        margin:46;
        position:fixed;
        top:0;
        right:0;
        bottom:0;
        left:0; 
    }
    .d3-tip {
      line-height: 1;
        font-weight: bold;
      padding: 11px;
      background: rgba(0, 0, 0, 0.8);
      color: #ff0505;
      border-radius: 2px;
    }
        /* Creates a small triangle extender for the tooltip */
    .d3-tip:after {
      box-sizing: border-box;
      display: inline;
      font-size: 10px;
      width: 100%;
      line-height: 1;
      color: rgba(0, 0, 0, 0.8);
      content: "\25BC";
      position: absolute;
      text-align: center;
    }
​
    /* Style northward tooltips differently */
    .d3-tip.n:after {
      margin: -1px 0 0 0;
      top: 100%;
      left: 0;
    }
  </style>
</head>
​
<body>
  
  <script>
    // Feel free to change or delete any of the code you see!
    var genomelength = 16294;
    
    var tickMarks = {
      thousand: [], 
      fivehundred: [], 
      onehundred: []
    };
    
        var genome_positions = [];
        for (var i = 1; i <= genomelength; i++) {
        genome_positions.push(i);
        }
    
    genome_positions.forEach(function(currentValue, index, myArray){
      if (currentValue % 1000 === 0) {
        tickMarks.thousand.push(currentValue);
      }
      else if (currentValue % 500 === 0) {
        tickMarks.fivehundred.push(currentValue);
​
      }
      else if (currentValue % 100 === 0) {
        tickMarks.onehundred.push(currentValue);
      }
    });    
    
    var tip = d3.tip()
    .attr('class', 'd3-tip')
    .offset([-55, -48])
    .html(function(d) {
      return "<b>Product:</b> <span style='color:white'>" + d.product + "</span>";
    })
    
    var svg = d3.select("body").append("svg").attr({height: 500,width: genomelength/10});
    svg.append("rect")
      .attr({x: 0, y: 100, width: genomelength/10, height: 30})
        .style({"stroke-width":"2px","fill":"white","stroke":"black"})
        ;
    
    svg.call(tip);
    
    d3.json("genes.json.txt", function(error, json) {
          if (error) return console.warn(error);
            var rects = svg.selectAll(".genes")
        .data(json)
          .enter()
        .append("rect")
        .on('mouseover', tip.show)
        .on('mouseout', tip.hide);
       
      function fade(opacity) {
        return function(g, i) {
            svg.selectAll(".genes")
                .filter(function(d) { return d.start != i && d.stop != i; })
              .transition()
                .style("opacity", opacity);
        };
      }
      
    
      var rectLabels = svg.selectAll (".name")
        .data (json)
        .enter()
        .append("text");
        
        var rectlabels = rectLabels
        .attr("x", function (d) {
          return ((d.stop+d.start)/10)/2.04
        })
        .attr("y", function (d) {
          if (d.direction == "forward" && d.name%2==0) {
            return 57;
          }
          else if (d.direction == "forward" && d.name%2!==0) {
            return 82;
          }
          else if (d.direction == "reverse" && d.name%2==0) {
            return 160;
          }
          else if (d.direction == "reverse" && d.name%2!==0) {
            return 180;
          }
            else    {
            return 82;
          }
        })  
        .transition (1000).delay (1000)
        .text(function (d) {return d.name})
        .style({
          "font-family":"verdana",
          "font-size":"20px",
          "fill":"white"
        });
   
            var rectAttributes = rects
        .attr("x", function (d) { 
          return d.start/10; 
        })
          .attr("y", function (d) { 
          return 100; 
        })
        .attr("height", function(d) { 
          return 0;
        })
        .attr("width", function (d) { 
          return (d.stop-d.start)/10; 
        })
        .style("fill", function(d) {
          if (d.direction === "forward") {
            return "green";
          }
          else if   (d.direction === "reverse"){
            return "red";
          }
          else  {
            return "yellow";
          }
        })
        .style({"stroke":"black", "stroke-width":"2px"})
            .transition().delay(2000).duration(1000)
          .attr("y", function (d) { 
          if (d.direction == "forward" && d.name%2==0) {
          return 35; 
          }
          else if (d.direction == "forward" && d.name%2!==0) {
            return 60; 
          }
          else if (d.direction === "reverse" && d.name%2==0) {
            return 140;
          }
          else if (d.direction == "reverse" && d.name%2!==0) {
            return 158;
          }
          else  {
            return 60;
          }
        })
        .attr("height", function (d) {return 30;})}
        );
    
    var group = svg.selectAll(".a")
      .data(tickMarks.thousand)
      .enter()
        .append("g");
    group.append("rect")
        .style({"fill": "black"})
      .attr({x: 0, y: 100, width: "1px", height: 30})
            .transition().duration(3000)
        .attr("transform", function (d) { return "translate(" + d/10 + ",0)"; });
        var group2 = svg.selectAll(".b")
      .data(tickMarks.fivehundred)
      .enter()
        .append("g");
    group2.append("rect")
        .style({"fill": "black"})
      .attr({x: 0, y: 100, width: "1px", height: 15})
        .transition().duration(2000)
      .attr("transform", function (d) { return "translate(" + d/10 + ",0)"; });
        var group3 = svg.selectAll(".c")
      .data(tickMarks.onehundred)
      .enter()
        .append("g");
    group3.append("rect")
        .style({"fill": "black"})
      .attr({x: 0, y: 115, width: "1px", height: 15})
        .transition().duration(1000)
      .attr("transform", function (d) { return "translate(" + d/10 + ",0)"; });
​
  </script>
</body>
​
    