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R HClust to d3.js Dendogram
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| library(rjson) | |
| #convert output from hclust into a nested JSON file | |
| HCtoJSON<-function(hc){ | |
| labels<-hc$labels | |
| merge<-data.frame(hc$merge) | |
| for (i in (1:nrow(merge))) { | |
| if (merge[i,1]<0 & merge[i,2]<0) {eval(parse(text=paste0("node", i, "<-list(name=\"node", i, "\", children=list(list(name=labels[-merge[i,1]]),list(name=labels[-merge[i,2]])))")))} | |
| else if (merge[i,1]>0 & merge[i,2]<0) {eval(parse(text=paste0("node", i, "<-list(name=\"node", i, "\", children=list(node", merge[i,1], ", list(name=labels[-merge[i,2]])))")))} | |
| else if (merge[i,1]<0 & merge[i,2]>0) {eval(parse(text=paste0("node", i, "<-list(name=\"node", i, "\", children=list(list(name=labels[-merge[i,1]]), node", merge[i,2],"))")))} | |
| else if (merge[i,1]>0 & merge[i,2]>0) {eval(parse(text=paste0("node", i, "<-list(name=\"node", i, "\", children=list(node",merge[i,1] , ", node" , merge[i,2]," ))")))} | |
| } | |
| eval(parse(text=paste0("JSON<-toJSON(node",nrow(merge), ")"))) | |
| return(JSON) | |
| } | |
| #wrap nested JSON file into d3 html | |
| D3Dendo<-function(JSON, text=15, height=800, width=700, file_out){ | |
| header<-paste0("<!DOCTYPE html> | |
| <meta charset=\"utf-8\"> | |
| <style> | |
| .node circle { | |
| fill: #fff; | |
| stroke: steelblue; | |
| stroke-width: 1.5px; | |
| } | |
| .node { | |
| font: ",text , "px sans-serif; | |
| } | |
| .link { | |
| fill: none; | |
| stroke: #ccc; | |
| stroke-width: 1.5px; | |
| } | |
| </style> | |
| <body> | |
| <script src=\"http://d3js.org/d3.v3.min.js\"></script> | |
| <script type=\"application/json\" id=\"data\">") | |
| footer<-paste0("</script> | |
| <script> | |
| var data = document.getElementById('data').innerHTML; | |
| root = JSON.parse(data); | |
| var width = ", width, ", | |
| height = ", height, "; | |
| var cluster = d3.layout.cluster() | |
| .size([height-50, width - 160]); | |
| var diagonal = d3.svg.diagonal() | |
| .projection(function(d) { return [d.y, d.x]; }); | |
| var svg = d3.select(\"body\").append(\"svg\") | |
| .attr(\"width\", width) | |
| .attr(\"height\", height) | |
| .append(\"g\") | |
| .attr(\"transform\", \"translate(40,0)\"); | |
| var nodes = cluster.nodes(root), | |
| links = cluster.links(nodes); | |
| var link = svg.selectAll(\".link\") | |
| .data(links) | |
| .enter().append(\"path\") | |
| .attr(\"class\", \"link\") | |
| .attr(\"d\", diagonal); | |
| var node = svg.selectAll(\".node\") | |
| .data(nodes) | |
| .enter().append(\"g\") | |
| .attr(\"class\", \"node\") | |
| .attr(\"transform\", function(d) { return \"translate(\" + d.y + \",\" + d.x + \")\"; }) | |
| node.append(\"circle\") | |
| .attr(\"r\", 4.5); | |
| node.append(\"text\") | |
| .attr(\"dx\", function(d) { return d.children ? 8 : 8; }) | |
| .attr(\"dy\", function(d) { return d.children ? 20 : 4; }) | |
| .style(\"text-anchor\", function(d) { return d.children ? \"end\" : \"start\"; }) | |
| .text(function(d) { return d.name; }); | |
| d3.select(self.frameElement).style(\"height\", height + \"px\"); | |
| </script>") | |
| fileConn<-file(file_out) | |
| writeLines(paste0(header, JSON, footer), fileConn) | |
| close(fileConn) | |
| } | |
| hc <- hclust(dist(USArrests), "ave") | |
| plot(hc) | |
| JSON<-HCtoJSON(hc) | |
| D3Dendo(JSON, file_out="/Users/home/Documents/R_Projects/D3/USArrests_Dendo.html") | |
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