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To run the ‘Cell ranger’ task in Flow, select ‘Unaligned reads’ datanode, then select ‘Cell ranger’ in the ‘10x Genomics’ section (Figure 1).
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We recommend filtering to a set of genes you want to test for enrichment, but Gene set enrichment will run on any Feature list data node.
- Click a Feature list data node
- Click the Biological interpretation section of the toolbox
- Click Gene set enrichment
- Configure the background gene list (optional)
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