added the distributions

Former-commit-id: d38ff303e4

css/dc.css

@@ -1,249 +0,0 @@
-.dc-chart path.dc-symbol, .dc-legend g.dc-legend-item.fadeout {
-  fill-opacity: 0.5;
-  stroke-opacity: 0.5; }
-
-div.dc-chart {
-  float: left; }
-
-.dc-chart rect.bar {
-  stroke: none;
-  cursor: pointer; }
-  .dc-chart rect.bar:hover {
-    fill-opacity: .5; }
-
-.dc-chart rect.deselected {
-  stroke: none;
-  fill: #ccc; }
-
-.dc-chart .pie-slice {
-  fill: #fff;
-  font-size: 12px;
-  cursor: pointer; }
-  .dc-chart .pie-slice.external {
-    fill: #000; }
-  .dc-chart .pie-slice :hover, .dc-chart .pie-slice.highlight {
-    fill-opacity: .8; }
-
-.dc-chart .pie-path {
-  fill: none;
-  stroke-width: 2px;
-  stroke: #000;
-  opacity: 0.4; }
-
-.dc-chart .selected path, .dc-chart .selected circle {
-  stroke-width: 3;
-  stroke: #ccc;
-  fill-opacity: 1; }
-
-.dc-chart .deselected path, .dc-chart .deselected circle {
-  stroke: none;
-  fill-opacity: .5;
-  fill: #ccc; }
-
-.dc-chart .axis path, .dc-chart .axis line {
-  fill: none;
-  stroke: #000;
-  shape-rendering: crispEdges; }
-
-.dc-chart .axis text {
-  font: 10px sans-serif; }
-
-.dc-chart .grid-line, .dc-chart .axis .grid-line, .dc-chart .grid-line line, .dc-chart .axis .grid-line line {
-  fill: none;
-  stroke: #ccc;
-  shape-rendering: crispEdges; }
-
-.dc-chart .brush rect.selection {
-  fill: #4682b4;
-  fill-opacity: .125; }
-
-.dc-chart .brush .custom-brush-handle {
-  fill: #eee;
-  stroke: #666;
-  cursor: ew-resize; }
-
-.dc-chart path.line {
-  fill: none;
-  stroke-width: 1.5px; }
-
-.dc-chart path.area {
-  fill-opacity: .3;
-  stroke: none; }
-
-.dc-chart path.highlight {
-  stroke-width: 3;
-  fill-opacity: 1;
-  stroke-opacity: 1; }
-
-.dc-chart g.state {
-  cursor: pointer; }
-  .dc-chart g.state :hover {
-    fill-opacity: .8; }
-  .dc-chart g.state path {
-    stroke: #fff; }
-
-.dc-chart g.deselected path {
-  fill: #808080; }
-
-.dc-chart g.deselected text {
-  display: none; }
-
-.dc-chart g.row rect {
-  fill-opacity: 0.8;
-  cursor: pointer; }
-  .dc-chart g.row rect:hover {
-    fill-opacity: 0.6; }
-
-.dc-chart g.row text {
-  fill: #fff;
-  font-size: 12px;
-  cursor: pointer; }
-
-.dc-chart g.dc-tooltip path {
-  fill: none;
-  stroke: #808080;
-  stroke-opacity: .8; }
-
-.dc-chart g.county path {
-  stroke: #fff;
-  fill: none; }
-
-.dc-chart g.debug rect {
-  fill: #00f;
-  fill-opacity: .2; }
-
-.dc-chart g.axis text {
-  -webkit-touch-callout: none;
-  -webkit-user-select: none;
-  -khtml-user-select: none;
-  -moz-user-select: none;
-  -ms-user-select: none;
-  user-select: none;
-  pointer-events: none; }
-
-.dc-chart .node {
-  font-size: 0.7em;
-  cursor: pointer; }
-  .dc-chart .node :hover {
-    fill-opacity: .8; }
-
-.dc-chart .bubble {
-  stroke: none;
-  fill-opacity: 0.6; }
-
-.dc-chart .highlight {
-  fill-opacity: 1;
-  stroke-opacity: 1; }
-
-.dc-chart .fadeout {
-  fill-opacity: 0.2;
-  stroke-opacity: 0.2; }
-
-.dc-chart .box text {
-  font: 10px sans-serif;
-  -webkit-touch-callout: none;
-  -webkit-user-select: none;
-  -khtml-user-select: none;
-  -moz-user-select: none;
-  -ms-user-select: none;
-  user-select: none;
-  pointer-events: none; }
-
-.dc-chart .box line {
-  fill: #fff; }
-
-.dc-chart .box rect, .dc-chart .box line, .dc-chart .box circle {
-  stroke: #000;
-  stroke-width: 1.5px; }
-
-.dc-chart .box .center {
-  stroke-dasharray: 3, 3; }
-
-.dc-chart .box .data {
-  stroke: none;
-  stroke-width: 0px; }
-
-.dc-chart .box .outlier {
-  fill: none;
-  stroke: #ccc; }
-
-.dc-chart .box .outlierBold {
-  fill: red;
-  stroke: none; }
-
-.dc-chart .box.deselected {
-  opacity: 0.5; }
-  .dc-chart .box.deselected .box {
-    fill: #ccc; }
-
-.dc-chart .symbol {
-  stroke: none; }
-
-.dc-chart .heatmap .box-group.deselected rect {
-  stroke: none;
-  fill-opacity: 0.5;
-  fill: #ccc; }
-
-.dc-chart .heatmap g.axis text {
-  pointer-events: all;
-  cursor: pointer; }
-
-.dc-chart .empty-chart .pie-slice {
-  cursor: default; }
-  .dc-chart .empty-chart .pie-slice path {
-    fill: #fee;
-    cursor: default; }
-
-.dc-data-count {
-  float: right;
-  margin-top: 15px;
-  margin-right: 15px; }
-  .dc-data-count .filter-count, .dc-data-count .total-count {
-    color: #3182bd;
-    font-weight: bold; }
-
-.dc-legend {
-  font-size: 11px; }
-  .dc-legend .dc-legend-item {
-    cursor: pointer; }
-
-.dc-hard .number-display {
-  float: none; }
-
-div.dc-html-legend {
-  overflow-y: auto;
-  overflow-x: hidden;
-  height: inherit;
-  float: right;
-  padding-right: 2px; }
-  div.dc-html-legend .dc-legend-item-horizontal {
-    display: inline-block;
-    margin-left: 5px;
-    margin-right: 5px;
-    cursor: pointer; }
-    div.dc-html-legend .dc-legend-item-horizontal.selected {
-      background-color: #3182bd;
-      color: white; }
-  div.dc-html-legend .dc-legend-item-vertical {
-    display: block;
-    margin-top: 5px;
-    padding-top: 1px;
-    padding-bottom: 1px;
-    cursor: pointer; }
-    div.dc-html-legend .dc-legend-item-vertical.selected {
-      background-color: #3182bd;
-      color: white; }
-  div.dc-html-legend .dc-legend-item-color {
-    display: table-cell;
-    width: 12px;
-    height: 12px; }
-  div.dc-html-legend .dc-legend-item-label {
-    line-height: 12px;
-    display: table-cell;
-    vertical-align: middle;
-    padding-left: 3px;
-    padding-right: 3px;
-    font-size: 0.75em; }
-
-.dc-html-legend-container {
-  height: inherit; }

css/style.css

@@ -106,17 +106,20 @@ cursor: default;
   margin-top: -60px;
 }
 
+.right-side-hist {
+  margin-left:-2px;
+  margin-top: -2px;
+}
+
 .right-side-star {
   margin-left:12px;
-  margin-top: -5px;
+  margin-top: -50px;
 }
 
 #left-side-param{
-  margin-top: -115px;
 }
 
 #left-side-visual{
-  margin-top: -160px;
   margin-left: 15px;
   margin-right: -5px;
 }
@@ -142,9 +145,9 @@ cursor: default;
 /* A little styling for knn's bar chart */
 #knnBarChart {
   width: 50vw !important;
-  height: 5.5vw !important;
+  height: 5.4vw !important;
   border: 1px solid black !important;
-  margin-top: 0.2vw;
+  margin-top: 6.6vw;
   position: absolute !important;
 }
 
@@ -170,12 +173,18 @@ cursor: default;
 
 /* Legend of the Overview t-SNE canvas */
 #legend2 {
-   height: 11vw;
+   height: 9vw;
    width: 11vw;
    text-align: left;
    overflow: auto;
+   margin-left: -6px;
   }
 
+  /* Legend of the Overview t-SNE canvas */
+.PoinRadius {
+  margin-top: 30px;
+ }
+
   /* Legend of the Overview t-SNE canvas */
  #legend1 {
   height: 11vw;
@@ -426,3 +435,8 @@ ul {
   left: 5px;
   top: 5px;
 }
+
+#costHist {
+  width: 6vw;
+  height: 9.55vw;
+}

data/blobs.csv

@@ -0,0 +1,600 @@
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+9.377095522001454242e+00,8.568080377433846095e+00,5.633829166190934323e+00
+1.054678357378159070e+01,9.632900585954914163e+00,4.255023175435741045e+00
+-8.514859996448457480e+00,-2.634864157974915244e+00,6.990630515024599312e+00
+-4.328142726452472999e+00,-1.897140467942267428e+00,1.034158043874201915e+01
+8.429876783773622151e-01,8.282832615317071046e+00,9.134937169724615558e+00
+-3.038238671598433527e+00,7.042599352527371792e+00,8.272018516074300720e+00
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+8.105586719683417485e+00,7.185290138906145430e+00,5.109355225500367581e+00
+9.949429408129486063e+00,8.341156951308107637e+00,5.097506520708577682e+00
+-5.857541570504343653e+00,-1.394158161851509092e+00,1.069973223570874765e+01
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+-3.164573154811130440e+00,6.764193624077682543e+00,9.068309405238874632e+00
+-7.603905115858644592e-01,8.409637466713032694e+00,1.060790867375717106e+01
+-3.248790209934425022e+00,1.150401830648337764e+01,1.100842437362505777e+01
+-1.816061245405056646e+00,-9.654480649089625999e+00,2.780743611491478084e+00
+8.895382803453900422e+00,7.215055563088744073e+00,2.628002679465106350e+00
+9.680555324232924974e+00,7.280060607611495094e+00,6.599838301624779469e+00
+-3.268440822339583551e+00,-7.393125491736619814e+00,5.590246579612232480e+00

index.html

@@ -31,7 +31,6 @@
     <!-- CSS - Styling -->
     <link rel="stylesheet" href="./css/style.css"/>
     <link rel="stylesheet" href="./css/bootstrap.min.css"/>
-    <link rel="stylesheet" href="./css/dc.css"/>
     <link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/meyer-reset/2.0/reset.min.css">
     
     <!-- Bootstrap -->
@@ -45,19 +44,20 @@
           <div class="col-md-3">
             <div class="panel panel-default">
               <div class="panel-heading">
-                  <h2 class="panel-title">t-SNE Overview</h2>
+                  <h2 class="panel-title" style="display:inline-block">t-SNE Overview</h2><div id="datasetDetails"style="display:inline-block; float:right"></div>
               </div>
               <div class="row">
                 <div class="panel-body">
                     <div class="col-md-6">
                         <canvas id = "tSNEcanvas"></canvas>
                     </div>
-                    <div class="col-md-2">
+                    <div class="col-md-6">
+                        <div style="display:block" id="CategoryName"></div>
                         <div class="legend" id = "legend2"></div>
                     </div>
                 </div>
               </div>
-              <div id="control-panel">
+              <div id="control-panel" class="PoinRadius">
                 <div class="param">
                   <label for="param-lim" >Points radius scaling factor</label>
                   <input id="param-lim" type="range" min="1" max="4" value="3", step="0.5" onchange="setReInitialize();">
@@ -120,21 +120,21 @@
             </div>
           </div>
           <div class="col-md-3 col-md-offset-6">
-              <div class="panel panel-default right-side-cor">
-                  <div class="panel-heading">
-                      <h2 class="panel-title">Correlation Schema Investigation</h2>
-                  </div>
-                  <div class="panel-body">  
-                    <svg id="correlation"></svg>
-                  </div>
+            <div class="panel panel-default right-side-cor">
+                <div class="panel-heading">
+                    <h2 class="panel-title">Correlation Schema Investigation</h2>
                 </div>
-              </div>
+                <div class="panel-body">  
+                  <svg id="correlation"></svg>
+                </div>
+            </div>
           </div>
+        </div>
         <div class="row">
           <div class="col-md-3">
             <div class="panel panel-default" id="left-side-param">
                 <div class="panel-heading">
-                  <h2 class="panel-title">t-SNE Parameters</h2>
+                  <h2 class="panel-title" style="display:inline-block">t-SNE Parameters</h2><div id="cost" style="display:inline-block; float:right"></div>
                 </div>
               <div class="panel-body">
                 <div id="control-panel" data-sr="enter left over 8s">
@@ -246,17 +246,13 @@
               </div>
         </div>
         <div class="col-md-3" id="extra-information" style="width: 24.6vw">
-            <div class="panel panel-default">
-              <div class="panel-heading">
-                  <h2 class="panel-title">t-SNE and Data Set's Additional Information</h2>
-              </div>
-              <div class="panel-body">
-                <div id="cost"></div>
-                <br>
-                <div id="datasetDetails"></div>
-                <br>
-                <div id="CategoryName"></div>
-              </div>
+            <div class="panel panel-default right-side-hist">
+                <div class="panel-heading">
+                    <h2 class="panel-title">1/sigma and Kullback-Leibler Distributions</h2>
+                </div>
+                <div class="panel-body">  
+                  <div id="costHist"></div>
+                </div>
             </div>
           </div>
       </div>
@@ -264,9 +260,9 @@
 
     <script>
 
-      $("#cost").html('Uknown iteration and cost values.');
-      $("#datasetDetails").html('Uknown number of features and instances.');
-      $("#CategoryName").html('No specific classification.');
+      $("#cost").html('(Uknown iteration and cost values.)');
+      $("#datasetDetails").html('(Uknown number of features and instances.)');
+      $("#CategoryName").html('No Classification');
       /* This script is used in order to give functionalities to the different buttons provide through the front-end. */
       $('#param-lim').bind('input', function () { $('#param-lim-value').text($('#param-lim').val()); }); 
       $('#param-corr').bind('input', function () { $('#param-corr-value').text($('#param-corr').val()); });

js/tsne_vis.js

@@ -571,7 +571,7 @@ function init(data, results_all, fields) {
       }
     }
 
-    $("#datasetDetails").html("Number of Features: " + (Object.keys(dataFeatures[0]).length - valCategExists) + ", Number of Instances: " + final_dataset.length); // Print on the screen the number of features and instances of the data set, which is being analyzed.
+    $("#datasetDetails").html("(Number of Features: " + (Object.keys(dataFeatures[0]).length - valCategExists) + ", Number of Instances: " + final_dataset.length + ")"); // Print on the screen the number of features and instances of the data set, which is being analyzed.
     if (Category == undefined){
       $("#CategoryName").html("Classification label: No category"); // Print on the screen the classification label.
     } else {
@@ -780,7 +780,7 @@ function updateEmbedding(AnalysisResults) {
       ParametersSet = AnalysisResults.slice(2*dataFeatures.length+length+1, 2*dataFeatures.length+length+7); // Load the parameters and set the necessary values to the visualization of those parameters.
       dists = AnalysisResults.slice(2*dataFeatures.length+length+7, 2*dataFeatures.length+length+8)[0]; // Load the parameters and set the necessary values to the visualization of those parameters.
       dists2d = AnalysisResults.slice(2*dataFeatures.length+length+8, 2*dataFeatures.length+length+9)[0]; // Load the parameters and set the necessary values to the visualization of those parameters.
-      $("#cost").html("Number of Iteration: " + ParametersSet[3] + ", Overall Cost: " + overallCost);
+      $("#cost").html("(Number of Iteration: " + ParametersSet[3] + ", Overall Cost: " + overallCost + ")");
       $('#param-perplexity-value').text(ParametersSet[1]);
       $('#param-learningrate-value').text(ParametersSet[2]);
       $('#param-maxiter-value').text(ParametersSet[3]);
@@ -792,7 +792,7 @@ function updateEmbedding(AnalysisResults) {
       points2d = AnalysisResults.slice(length, 2*length); // Load the 2D points 
       overallCost = AnalysisResults.slice(2*length, 2*length+1); // Load the overall cost
       ParametersSet = AnalysisResults.slice(2*length+1, 2*length+7); // Load the parameters and set the necessary values to the visualization of those parameters.
-      $("#cost").html("Number of Iteration: " + ParametersSet[3] + ", Overall Cost: " + overallCost);
+      $("#cost").html("(Number of Iteration: " + ParametersSet[3] + ", Overall Cost: " + overallCost + ")");
       $('#param-perplexity-value').text(ParametersSet[1]);
       $('#param-learningrate-value').text(ParametersSet[2]);
       $('#param-maxiter-value').text(ParametersSet[3]);
@@ -815,6 +815,7 @@ function updateEmbedding(AnalysisResults) {
   OverviewtSNE(points);
   ShepardHeatMap();
   BetatSNE(points);
+  CostHistogram(points);
 }
 
 function ShepardHeatMap () {
@@ -1016,7 +1017,7 @@ function step() {
           cost = tsne.step();
           cost_each = cost[1];
           for(var i = 0; i < final_dataset.length; i++) final_dataset[i].cost = cost_each[i];
-          $("#cost").html("Number of Iteration: " + tsne.iter + ", Overall Cost: " + cost[0].toFixed(3));
+          $("#cost").html("(Number of Iteration: " + tsne.iter + ", Overall Cost: " + cost[0].toFixed(3) + ")");
         }
         else {
             clearInterval(runner);
@@ -1250,6 +1251,90 @@ function redraw(repoints){ // On redraw manipulate the points of the main and ov
   BetatSNE(repoints); // Redraw the points!
 }
 
+function CostHistogram(points){
+
+  var frequency = [];
+  var frequency2 = [];
+
+  points = points.sort(function(a, b) { // Sort them according to importance (darker color!)
+    return a.id - b.id;
+  })
+
+  var max2 = (d3.max(points,function(d){ return d.beta; }));
+  var min2 = (d3.min(points,function(d){ return d.beta; }));
+
+  for (var i=0; i<points.length; i++){
+    frequency2.push((points[i].beta)/(max2));
+  }
+
+    var trace1 = {
+      x: frequency2,
+      name: '1/sigma',
+      autobinx: false, 
+      marker: {
+        color: "rgb(128,0,0)",
+        line: {
+          color:  "rgb(0, 0, 0)", 
+          width: 1
+        }
+      },  
+      opacity: 0.5, 
+      type: "histogram", 
+      xbins: {
+        end: 1, 
+        size: 0.025,
+        start: 0
+      }
+    };
+
+    var max = (d3.max(points,function(d){ return d.cost; }));
+    var min = (d3.min(points,function(d){ return d.cost; }));
+  
+    for (var i=0; i<points.length; i++){
+      frequency.push((points[i].cost-min)/(max-min));
+    }
+
+    var trace2 = {
+      x: frequency,
+      name: 'KLD(P||Q)',
+      autobinx: false, 
+      histnorm: "count", 
+      marker: {
+        color: "rgb(0,128,0)", 
+         line: {
+          color:  "rgb(0, 0, 0)", 
+          width: 1
+        }
+      },  
+      opacity: 0.5, 
+      type: "histogram", 
+      xbins: {
+        end: 1, 
+        size: 0.025,
+        start: 0
+      }
+    };
+
+  var data = [trace1, trace2];
+  var layout = {
+    barmode: "overlay",
+    bargroupgap: points.length,
+    autosize: false,
+    width: 550,
+    height: 240,
+    margin: {
+      l: 40,
+      r: 20,
+      b: 30,
+      t: 0,
+      pad: 4
+    },
+    xaxis:{range: [0,1]}
+  };
+
+  Plotly.newPlot('costHist', data, layout, {displayModeBar:false}, {staticPlot: true});
+}
+
 function handleLassoEnd(lassoPolygon) { // This is for the lasso interaction
 
   var countLassoFalse = 0;
@@ -1309,10 +1394,10 @@ var zoomer = d3v3.behavior.zoom()
 // Margin of the main barchart
 var main_margin = {top: 8, right: 10, bottom: 30, left: 100},
   main_width = 500 - main_margin.left - main_margin.right,
-  main_height = 475 - main_margin.top - main_margin.bottom;
+  main_height = 320 - main_margin.top - main_margin.bottom;
 // Margin of the mini barchart
 var mini_margin = {top: 8, right: 10, bottom: 30, left: 10},
-  mini_height = 475 - mini_margin.top - mini_margin.bottom;
+  mini_height = 320 - mini_margin.top - mini_margin.bottom;
   mini_width = 100 - mini_margin.left - mini_margin.right;
 
 // Create the svg correlation component
@@ -2270,7 +2355,7 @@ if (points.length) { // If points exist (at least 1 point)
           xaxis: {range: [0, LimitXaxis]},
           yaxis: {range: [0, 1]}};
         
-        Plotly.newPlot('knnBarChart', data, layout, {displayModeBar:false},{staticPlot: true});
+        Plotly.newPlot('knnBarChart', data, layout, {displayModeBar:false}, {staticPlot: true});
 
               
         // Here we have the code for the starplot
@@ -2402,7 +2487,7 @@ if (points.length) { // If points exist (at least 1 point)
         .labelFormat(d3.format(",.0f"))
         .cells(9)
         .labels([abbr_labels_beta[0],abbr_labels_beta[1],abbr_labels_beta[2],abbr_labels_beta[3],abbr_labels_beta[4],abbr_labels_beta[5],abbr_labels_beta[6],abbr_labels_beta[7],abbr_labels_beta[8]])
-        .title("1 / sigma")
+        .title("1/sigma")
         .scale(colorScale);
         
       svg.select(".legendLinear")