Genome browser for phamerator.org
forked from scresawn's block: genome browser
forked from grybnicky's block: genome browser
Created
February 23, 2016 17:20
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genome browser
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| 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" | |
| } | |
| ]; |
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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> | |
| </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: 10, y: 100, 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: 10, 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: 10, y: 100, 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: 10, y: 115, width: "1px", height: 16}) | |
| .transition().duration(1000) | |
| .attr("transform", function (d) { return "translate(" + d/10 + ",0)"; }); | |
| var genes = [] | |
| d3.dsv("genes.json.txt", function(d) {genes.append(d)}) | |
| var boxes = svg.selectAll(".g") | |
| .data(genes) | |
| .enter() | |
| .append("g") | |
| var boxAttr = boxes | |
| .append("rect") | |
| .style({"fill": "purple"}) | |
| .attr({"x": function(d){return d.start+10;}}) | |
| .attr({"y": 0}) | |
| .attr({width: function(d){d.stop-d.start;}}) | |
| .attr({height: 10}) | |
| </script> | |
| </body> |
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