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greenmna/.block

Last active April 10, 2018 15:53
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Bubbles for realskiezzzzz
Raw
.block
license: mit
Raw
BIO583_Salmonella_data.csv
Isolate Source Serotype AMR_Phenotype MLST rMLST cgMLST wgMLST gene_number
HJ1 Muddy Creek Give - 654 New 80760 118467 0
HJ2 Muddy Creek Give - 654 New 80760 94902 0
HJ3 Pleasant Run Uganda Strep Sulf Tet 684 8441 80845 94997 0
HJ4 Pleasant Run Uganda - 684 8441 70491 94903 0
HJ5 Cook's Creek Rt. 11 Litchfield - 214 7970 80915 95074 0
HJ6 Cook's Creek Rt. 11 Schwarzengrund - 96 1430 80849 95001 0
HJ7 Pleasant Run Muenster Strep Sulf Tet 321 3730 80796 94943 4
HJ8 Pleasant Run Muenster Strep Sulf Tet 321 3730 80796 94954 4
HJ9 Cook's Creek Rt. 704 Mbandaka - 413 3668 80794 94941 0
HJ10 Muddy Creek Anatum Tet 64 3700 80537 94650 1
HJ11 Cook's Creek Rt. 704 Schwarzengrund - 96 1430 80539 94651 0
HJ12 Cook's Creek Rt. 704 Senftenberg - 14 7973 80536 94654 0
HJ13 Cook's Creek Rt. 11 Hadar Amp Gent Strep Tet 33 3764 80533 94647 6
HJ14 Cook's Creek Rt. 11 Hadar Amp Gent Strep Tet 33 3764 80527 94646 6
HJ15 Cook's Creek Rt. 11 Hadar Amp Gent Strep Tet 33 3764 80538 94653 6
HJ16 Poultry Litter Cerro - 367 New 80542 118418 0
HJ17 Poultry Litter Typhimurium Gent Strep Sulf Tet 19 1369 80529 94648 6
HJ18 Poultry Litter Typhimurium Gent Strep Sulf Tet 19 1369 80535 94652 6
HJ19 Poultry Litter Typhimurium Gent Strep Sulf Tet 19 1369 80530 94655 6
HJ20 Poultry Litter Typhimurium Gent Strep Sulf Tet 19 1369 80534 94642 6
HJ21 Cook's Creek Rt. 11 Typhimurium - 19 1369 80528 94643 6
HJ22 Cook's Creek Rt. 704 Muenchen - 112 60549 80532 118420 0
HJ23 Cook's Creek Rt. 704 Muenchen - 112 60549 80526 94644 0
HJ24 Pleasant Run Montevideo - - - - - 0
HJ25 Pleasant Run Montevideo Strep - - - - 0
HJ26 Muddy Creek Senftenberg - - - - - 0
HJ27 Cook's Creek Rt. 704 Cerro - 367 New 101373 124055 0
HJ28 Cook's Creek Rt. 704 Cerro - 367 New 101373 124080 0
HJ29 Cook's Creek Rt. 704 Anatum - 64 3700 11895 124504 0
HJ30 Cook's Creek Park Braenderup - 22 26853 4601 124041 0
HJ31 Cook's Creek Park Braenderup - 22 26853 101420 124092 0
HJ32 Cook's Creek Park Braenderup - 22 26853 4601 132745 0
HJ33 Muddy Creek Montevideo - 138 8182 101411 124094 0
HJ38 Cook's Creek Park Typhimurium - - - - - 0
HJ39 Cook's Creek Park Typhimurium - - - - - 0
Raw
index.html
<!DOCTYPE html>
<head>
<meta charset="utf-8">
<svg width="960" height="960" font-family="sans-serif" font-size="10" text-anchor="middle"></svg>
<script src="https://d3js.org/d3.v4.min.js"></script>
<style>
body { margin:0;position:fixed;top:0;right:0;bottom:0;left:0; }
</style>
</head>
<body>
<script>
// Feel free to change or delete any of the code you see in this editor!
var salmonella_data=[]
var svg = d3.select("svg"),
width = +svg.attr("width"),
height = +svg.attr("height");
var format = d3.format(",d");
var color = d3.scaleOrdinal(d3.schemeCategory20c);
var pack = d3.pack()
.size([width, height])
.padding(1.5);
//var salmonella_data=[]
console.log(salmonella_data)
d3.csv("BIO583_Salmonella_data.csv", function(d){
if (d.Isolate) return d;
}, function (error, classes){
if (error) throw error;
classes.forEach(function(d){
salmonella_data.push({"Isolate": d.Isolate, "Source": d.Source, "Serotype": d.Serotype, "AMR Phenotype": d.AMR_Phenotype, "gene_number": +d.gene_number})})
var root = d3.hierarchy({children: classes})
.each (function (d){
if (Isolate = d.data.Isolate){
var Isolate, i = Isolate.lastIndexOf(".");
d.Isolate = Isolate;
d.package = Isolate.slice (0,i)
d.class = Isolate.slice (i+1)
}
});
var node = svg.selectAll(".node")
.data(pack(root).leaves())
.enter().append("g")
.attr("class", "node")
.attr("transform", function (d){return "translate(" + d.x + "," + d.y + ")";});
node.append("circle")
.attr("Isolate", function(d){return d.Isolate})
.attr("r", function (d) {return d.gene_number})
.attr("Serotype", function (d){return d.Serotype})
.style ("fill", function(d) {return color(d.package); });
/*node.append("clipPath")
.attr("Isolate", function(d) {return "clip-" + d.Isolate; })
.append("use")
.attr("xlink:href", function (d) {return "#" + d.Isolate; });*/
node.append("text")
.attr("clip-path", function (d) {return "url(#clip-" + d.Isolate + ")"})
.selectAll("tspan")
.data(function (d) {return d.class.split(/(?=[A-Z][^A-Z])/g); })
.enter().append("tspan")
.attr("x", 0)
.attr("y", function (d, i, nodes) {return 13 + (i - nodes.length / 2 - 0.5) * 10; })
.text(function (d) {return d});
node.append("title")
.text(function (d) {return d.Isolate + "\n" + format(d.value); });
});
//console.log(salmonella_data)
</script>
</body>
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