Performing

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• Click on the title of the project (Colon Cancer) to go back to the Analyses tab (Figure 10)
• Click on the Single cell counts node 

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tasks in the Analyses tab

A context-sensitive menu will appear on the right-hand side of the pipeline. This toolbox includes tasks that can be performed on the selected counts data node. 

An important step in analyzing single cell RNA-Seq data is to filter out low-quality cells. A few examples of low-quality cells are doublets, cells damaged during cell isolation, or cells with too few counts to be analyzed. Click here for more information on Single cell QA/QC. We will not perform Single cell QA/QC in this tutorial. 

• Click the Filtering drop-down in the toolbox
• Click the Filter Features task 
• Choose Noise reduction
• Exclude features where value <= 0.0 in at least 99.0% of the cells (Figure 11) cells 
• Click Finish

A task node, Filtered countsnode, is produced. Initially, the node will be semi-transparent to indicate that it has been queued, but not completed. A progress bar will appear on the Single cell QA/QC Filter features task node to indicate that the task is running.

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