Partek Flow Documentation

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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).

Numbered figure captions
SubtitleTextSelecting the Cell ranger task for converting fastqs to Single cell counts.
AnchorNameTask selection

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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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