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Use Principle Components Analysis (PCA) to reduce dimensions

• Click the Filtered  Normalized counts data node 
• Expand the Pre-analysis tools  Exploratory analysis section of the task menu
• Click Pool cells (Figure 1)

The pool cells dialog offers the option to pool cells by different cell-level attributes by taking the sum, maximum, mean, or median of the expression values of individual cells. Mean is selected by default (Figure 2).

• PCA 

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In this tutorial we will modify the PCA task parameters, to not split by sample.

• Uncheck (de-select) the Split by sample checkbox under Grouping
• Click Finish

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