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skutac / InCHlib.js

InCHlib (Interactive Cluster Heatmap library)
http://openscreen.cz/software/inchlib
37 stars 15 forks source link

Overlapping rows #19

Closed Mesya82 closed 3 years ago

Mesya82 commented 7 years ago

Hello! Just started using this library and got into a problem. image As you can see the graph is not looking as pretty as it supposed to be.

<!DOCTYPE html>
<html lang="en">
<head>
  <meta charset="UTF-8">
  <title>InCHlib test</title>
</head>
<body>

<style>
  html, body {
    height: 100%;
  }

  .diagram-container {
    /*width: 1000px;*/
    /*margin: 0 auto;*/
    /*height: 100%;*/
    /*position: relative;*/
  }

  .upload-container {
    text-align: center;
  }
</style>

<div class="upload-container">
  <input type="file" id="file">
  <button id="upload-btn">Upload</button>
</div>

<div class="diagram-container" id="diagram"></div>

<script src="jquery-2.0.3.min.js"></script>
<script src="kinetic-v5.1.0.min.js"></script>
<script src="inchlib-1.2.0.js"></script>
<script>
  $(document).ready(function () {

    window.inchlib = new InCHlib({
      target: "diagram",
      max_height: 1200,
      width: 1000,
      height: 1000,
      heatmap_colors: "Greens",
      metadata_colors: "Reds"
    });

    $('#upload-btn').click(function () {
      var $file = $('#file')[0];
      console.log('upload', $file);

      if ($file.files.length !== 1)
        return;

      var data = new FormData();
      var file = $file.files[0];
      data.append('uploaded_file', file);
      console.log('to upload file', data);

      $.ajax({
        url: 'http://%ip_here%/heatmap/generate-from-file',
        method: 'POST',
        data: data,
        contentType: false,
        processData: false,
        success: function (response) {
          var inchlibData = {
            data: response,
            feature_names: ['Test', 'Test', 'Test', 'Test', 'Test', 'Test', 'Test', 'Test', 'Test', 'Test', 'Test']
          };

          console.log('res', inchlibData);

          inchlib.read_data(inchlibData);
          inchlib.draw();
          inchlib.redraw();
        }
      })
    });

  });
</script>

</body>
</html>

The result object, that i'm loading is:

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            "left_child":"node_1_1",
            "right_child":"node_1_2"
         },
         "node_1_1":{
            "count":2,
            "distance":98700.97925552714,
            "parent":"node_1",
            "left_child":"leaf_1_1",
            "right_child":"leaf_1_2"
         },
         "leaf_1_1":{
            "count":1,
            "distance":0,
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            "parent":"node_1_1",
            "objects":[

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         },
         "leaf_1_2":{
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         },
         "node_1_2":{
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            "distance":93388.76946935322,
            "parent":"node_1",
            "left_child":"node_2_1",
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         },
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            "left_child":"leaf_2_1",
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The thing is that I'm trying to figure out input format, so I can generate it from my already clustered data from Java code

Looking for you help!

skutac commented 7 years ago

Hi, there is most probably some problem with your left/right child references.

I've just quickly tried to take your data and cluster them with inchlib_clust and there seems to be no problem.

test

Do you need to user your Java code instead of the inchlib_clust?

Mesya82 commented 7 years ago

Do you need to user your Java code instead of the inchlib_clust?

Yes. I do not have opportunity to use python. Clustering is done by Renjin library.

there is most probably some problem with your left/right child references.

Might it be the problem with "count" attribute?

skutac commented 7 years ago

You are right, I haven't noticed it in the data, but the count attribute represents the number of leaves contained in a certain part of the dendrogram. For root node, it should be the total number of leaves etc.

Mesya82 commented 7 years ago

Yes. Problem was with count. Now it's working perfectly. Thank you for fast response!

skutac commented 3 years ago

Resolved.