genome browser

Genome browser for phamerator.org

forked from scresawn's block: genome browser

<!DOCTYPE html>
<head>
  <meta charset="utf-8">
  <script src="https://cdnjs.cloudflare.com/ajax/libs/d3/3.5.5/d3.min.js"></script>

</head>

<body>
  <script>
    // Feel free to change or delete any of the code you see!
    var genomelength = 7800;
    
    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 svg = d3.select("body").append("svg").attr({width:genomelength});
    svg.append("rect")
      .attr({x: 0, y: 80, width: (genomelength) / 10, height: 30})
    	.style({"stroke-width": "2px", "fill": "white", "stroke": "black"});
      //.style({ fill: "#a72d1a"})
      //.transition().duration(3000).ease("bounce")
      //.style({ fill: "#5db9e3"})
    
    console.log(tickMarks);
    
		var group = svg.selectAll(".a")
      .data(tickMarks.thousand)
      .enter()
	    .append("g");
    group.append("rect")
     	.style({"fill": "black"})
      .attr({x: 0, y: 80, 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: 80, width: "1px", height: 16})
     	.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: 93, width: "1px", height: 16})
    	.transition().duration(1000)
      .attr("transform", function (d) { return "translate(" + d/10 + ",0)"; });

genes = [
	{
		name: 'gene 1',
		start: 50,
		stop: 300,
		direction: "forward"
	},
	{
		name: 'gene 2',
		start: 400,
		stop: 950,
		direction: "forward"
	},
	{
		name: 'gene 3',
		start: 4000,
		stop: 5550,
		direction: "forward"
	}
];
var svgContainer = d3.select("body").append("svg")
                                    .attr("width", 800)
			                              .attr("height", 800);
var rect = svgContainer.selectAll("rect")
                          .data(rect)
                          .enter()
                          .append("rect");
    var rectAttributes = rectangle
                       .attr("x", function (d) { return d.x_axis; })
                       .attr("y", function (d) { return d.y_axis; })
                       .attr("height", function (d) { return height; })
                       .style("fill", function(d) { return "blue"; });
  </script>
</body>

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