How do I download the list of marker genes for each cluster in xlsx format?

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How do I download the list of marker genes for each cluster in xlsx format?

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Hi Maria,

Thanks for posting your question and welcome to the Cellenics community forum!

Unfortunately, it is not possible at the moment to download in one go a list of all marker genes for all clusters. This is a feature that is on the roadmap for Cellenics for the near future though, I’ll keep you posted on this!

There is a work around you can use for the moment, but it is not ideal. These are the steps to follow to get a CSV file with the marker genes for one cluster at a time (see screen shot below):

  1. Go to Plots and Tables and select the Volcano Plot
  2. In the Differential expression panel, select the first option and compare one cluster against All other cells within All sample/groups, and click Compute.
  3. Click Export as CSV

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To get the marker genes for all clusters, you would have to repeat the above steps for all your clusters.

Not ideal, but I hope this helps answering your question. Let me know if my answer is unclear!

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