D3
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Old school D3 from simpler times
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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> <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> <script> var svg = d3.select("body").append("svg").attr("height", 1000); d3.json("experience.json.txt", function(error, json) { if (error) return console.warn(error); //console.log(json); 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: 0, y: 100, width: "1px", height: 30}) .attr({x: function (d) { return d/10; }, y: 0, width: "1px", height: 30}) .attr({"fill-opacity": 0}) .transition().duration(1500) .attr({"fill-opacity": 1}); //.attr("transform", function (d) { return "translate(" + d/10 + ",0)"; }); group.append("text") // kbp label .attr("x", function(d) {return (d/10) + 3;}) .attr("y", 12) .attr("font-family", "sans-serif") .attr("font-size", "14px") .attr("fill", "green") .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() 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}); //.attr("transform", function (d) { return "translate(" + d/10 + ",0)"; }); var group3 = phage.selectAll() 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) { console.log(i, d); 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 "green"; } else if (d.direction == "reverse") { return "red"; } else { return "black"; } }) .on("mouseover", function(d) { console.log(d); div.transition() .duration(500) .style("opacity", .9); div .html("The direction of gene " + d.name + " is " + d.direction)// 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", "sans-serif") .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": "blue"}) .attr("font-family", "sans-serif") .text(function(d) {return d.pham}) .attr("fill-opacity", 0) .transition().delay(3500).duration(1500) .attr("fill-opacity", 1); }); </script> </body>
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