Final genome browser with two tooltips

Genome browser for phamerator.org

forked from scresawn's block: genome browser

forked from smith13mr's block: genome browser for final group project

forked from scresawn's block: genome browser for final group project

forked from smith13mr's block: Two tooltips and fade out

forked from scresawn's block: Final genome browser with two tooltips

<!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="https://d3js.org/d3.v3.min.js"></script>
	<link rel="stylesheet" type="text/css" href="https://fonts.googleapis.com/css?family=Roboto+Slab:400,100,300,700">
	<link rel="stylesheet" type="text/css" href="https://fonts.googleapis.com/css?family=Roboto:400,100,100italic,300,300italic,400italic,500,500italic,700,700italic,900,900italic">
</head>

<body>   
  <style>
    
	/*tooltip for functions*/
div.tooltip {	
    position: absolute;		
    text-align: center;			
    width: 90px;					
    height: 45px;					
    padding: 3px;				
    font: 14px Arial;		
    background: lavender;	
    border: 0px;		
    border-radius: 8px;			
    pointer-events: none;
}
  </style>
  <script>

var svg = d3.select("body").append("svg").attr("height", 1000);
 			d3.json("test.json", function(error, json) {

hsps.on("mouseout", function(){d3.select(this).style("fill", "red");})
						.on("mousemove", function(){return tooltip.style("top", (event.pageY-10)+"px").style("left",(event.pageX+10)+"px");})
						.on("mouseout", function(){
         d3.select(this).style("fill", "red");
         return tooltip.style("visibility", "hidden");
       })
//tooltip for evalue
  var tooltip = d3.select("body")
	.append("div")
	.style("z-index", "10")
	.style("visibility", "hidden")
  .style("background","lightcyan")
  .style("width","150px")
  .style("height", "30px")
  .style("text-align", "center")
  .style("position", "absolute")
  .style("padding", "2px")
  .style("font", "ariel")
  .style("border-radius","8px")
  .style("opacity", 0.9);     
      }); 
    
    d3.json("genes.json.txt", function(error, json) {
    if (error) return console.warn(error);
    
    svg.attr("width", function (d) {
      return d3.max(json, function(d) {
        return d.genomelength/10;
      })
    });

// Define the div for the tooltip
    var div = d3.select("body").append("div")
      .attr("class", "tooltip")
      .style("opacity", 0);

var phage = svg.selectAll(".genomes")
      .data(json)
      .enter()
      .append("g");
   
    phage.attr("transform", function(d, i) { return "translate(0," + (100 + (i*225)) + ")"; });

phage.append("rect") // background for ruler
      .attr({x: 0, y: 0, width: function(d) { return d.genomelength/10; }, height: 30})
      .style({"stroke-width": "2px", "fill": "white", "stroke": "black"})
      .attr("stroke-opacity", 0)
      .transition().duration(1000)
      .attr("stroke-opacity", 1)
			;
      
    var group = phage.selectAll(".thousandticks")
      .data(function (d) {
          ticks = [];
          genome_positions = d3.range(d.genomelength);
          genome_positions.forEach(function (currentValue, index, myArray) {
            if (currentValue % 1000 === 0) {
              ticks.push(currentValue);
            }
          });
          return ticks;
        }
      )
      .enter()
      .append("g");
    group.append("rect")
      .style({"fill": "black"})
      .attr({x: function (d) { return d/10; }, y: 0, width: "1px", height: 30})
      .attr({"fill-opacity": 0})
      .transition().duration(1500)
      .attr({"fill-opacity": 1});

group.append("text") // kbp label
      .attr("x", function(d) {return (d/10) + 3;})
      .attr("y", 12)
      .attr("font-family", "ariel")
      .attr("font-size", "14px")
      .attr("fill", "black")
      .style("text-anchor", "start")
      .text(function(d) { return d/1000; })
      .attr({"fill-opacity": 0})
      .transition().duration(1500)
      .attr({"fill-opacity": 1});
    var group2 = phage.selectAll(".fivehundredticks")
      .data(function (d) {
        ticks = [];
        genome_positions = d3.range(d.genomelength);
        genome_positions.forEach(function (currentValue, index, myArray) {
          if (currentValue % 500 === 0 & currentValue % 1000 !== 0) {
            ticks.push(currentValue);
          }
        })
        return ticks;
      })
      .enter()
      .append("g");
    group2.append("rect")
      .style({"fill": "black"})
      .attr({x: function(d) {return d/10;}, y: 0, width: "1px", height: 15})
      .attr({"fill-opacity": 0})
      .transition().duration(1500)
      .attr({"fill-opacity": 1});
      
    var group3 = phage.selectAll(".onehundredticks")
      .data(function (d) {
        ticks = [];
        genome_positions = d3.range(d.genomelength);
        genome_positions.forEach(function (currentValue, index, myArray) {
          if (currentValue % 100 === 0 & currentValue % 1000 !== 0 & currentValue % 500 !== 0) {
            ticks.push(currentValue);
          }
        })
        return ticks;
      })
      .enter()
      .append("g");
    group3.append("rect")
      .style({"fill": "black"})
      .attr({x: function (d) { return d/10; }, y: 15, width: "1px", height: 15})
      .attr("fill-opacity", 0)
      .transition().duration(1500)
      .attr("fill-opacity", 1);

gene = phage.selectAll(".genes")
      .data(function(d, i) { return d.genes;})
      .enter()
      .append("g");
      gene.append("rect")
      .attr("y", function (d) {
        if (d.direction == "forward") {
          if (d.name % 2 === 0) {
            return  -70;
          }
          else { return -30;}
        }
        else if (d.direction == "reverse") {
          if (d.name % 2 === 0) {
            return 30;
          }
          else { return 60;}
        }
      })
      .attr("x", function (d) {
        if (d.direction === "forward") {
          return (0 - ((d.stop-d.start)/10)) - 2;
        }
        else if (d.direction === "reverse") {
          w = d3.select("svg").style("width");
          return w;
        }
      })
      .attr("height", function (d) {return 30;})
      .attr("width", function (d) { return (d.stop-d.start)/10; })
      .style({"stroke":"black", "stroke-width": "2px"})
      .attr("fill", function (d) {
        if (d.direction == "forward") {
          return "aquamarine";
        }
        else if (d.direction == "reverse") {
          return "lightskyblue";
        }
        else {
          return "black";
        }
      })
      
        .on("mouseover", function(d) {
        div.transition()
          .duration(500)
          .style("opacity", 0.9);
        div	.html(d.protein)
        
        // the text of the tooltip ...
          .style("left", (d3.event.pageX) + "px")
          .style("top", (d3.event.pageY - 28) + "px");
      })
      .on("mouseout", function(d) {
        div.transition()
          .duration(500)
          .style("opacity", 0);
      })
      .transition().delay(1000).duration(1500)
      .attr("x", function (d) { return d.start/10; });

gene.append("text") // gene name
      .attr("x", function(d) { return ((d.start + d.stop)/2)/10;})
      .attr("y", function (d) {
        if (d.direction == "forward") {
          if (d.name % 2 === 0) { // forward and even
            return -50;
          }
          else { return -10;} // forward and odd
        }
        else if (d.direction == "reverse") {
          if (d.name % 2 === 0) { // reverse and even
            return 50;
          }
          else { return 80;} //reverse and odd
        }
      })
      .style({"text-anchor": "middle", "fill": "black"})
      .attr("font-family", "ariel")
      .text(function(d) {return d.name})
      .attr("fill-opacity", 0)
      .transition().delay(2000).duration(1500)
      .attr("fill-opacity", 1)
      ;

gene.append("text") // pham name
      .attr("x", function(d) { return ((d.start + d.stop)/2)/10;})
      .attr("y", function (d) {
        if (d.direction == "forward") {
          if (d.name % 2 === 0) {
            return -80;
          }
          else { return -40;}
        }
        else if (d.direction == "reverse") {
          if (d.name % 2 === 0) {
            return 80;
          }
          else { return 110;}
        }
      })

.style({"text-anchor": "middle", "fill": "black"})
      .attr("font-family", "ariel")
      .text(function(d) {return d.pham})
      .attr("fill-opacity", 0)
      .transition().delay(3500).duration(1500)
      .attr("fill-opacity", 1)
    	;
  
   
  });
  </script>
  <script>
    
  </script>
</body>

Modified http://d3js.org/d3.v3.min.js to a secure url

https://cdnjs.cloudflare.com/ajax/libs/d3/3.5.5/d3.min.js

https://d3js.org/d3.v3.min.js