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SubtitleText | Invoking Hierarchical clustering |
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AnchorName | Invoking hierarchical clustering |
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The Hierarchical clustering menu will open (Figure 2). Hierarchical clustering can be performed with a heatmap or bubble map plot. Cluster must be selected under Ordering for both Feature order and Cell order if both the features (columns) and cells (rows) are to be clustered.
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SubtitleText | Configuring Hierarchical clustering |
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AnchorName | Configuring hierarchical clustering |
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- Click Finish to run with default settings
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SubtitleText | Hierarchical clustering task node |
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AnchorName | Hierarchical clustering task node |
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- Double-click the Hierarchical clustering / heatmap task node to launch the heatmap
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SubtitleText | Viewing the hierarchical clustering heat map |
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AnchorName | Dendrogram view |
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Samples are shown on rows and genes on columns. Clustering for samples and genes is shown through the dendrogram trees. More similar samples/genes are separated by fewer branch points of the dendrogram tree.
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SubtitleText | Samples labeled with their 5-AZA Dose group |
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AnchorName | Labeled samples |
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Samples cluster based on treatment group and the 5μM and 10μM groups are more similar to each other than to the 0μM group.
We can save the heatmap as a publication-quality image.
- Click the Save Export image icon Image Removed Image Addedin the top right corner of the plot
- Choose size and resolution using the Save as SVG dialog (Figure 6)
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SubtitleText | Choosing size and resolution for SVG file |
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AnchorName | Saving as SVG |
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The heatmap will be saved as a .svg file and downloaded in your web browser.
For more information about hierarchical clustering and the Dendrogram view, please see the Hierarchical Clustering (Old Version) user user guide.
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