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stuart-lab / signac

R toolkit for the analysis of single-cell chromatin data
https://stuartlab.org/signac/
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Question for interpreting motif analysis result #1732

Closed dbswls0322 closed 3 months ago

dbswls0322 commented 3 months ago

Dear Signac developer. I'm one of signac users.

First of all, I deeply appreciate your contribution for this package. I just have a simple question for the motif analysis result.

As you can see on your website. https://stuartlab.org/signac/articles/motif_vignette image

We obtained this document file after running FindMotifs function. I just wonder what fold.enrichment means.

Is it just A group's motif enrichment/ B group's enrichment? or log2fold change of enrichment? Can you please make it sure?

Best Regards.

timoast commented 3 months ago

It is the fold enrichment of the motif over the background set of peaks (percentage of query peaks with the motif divided by percentage of background peaks with the motif)

dbswls0322 commented 2 months ago

Thank you so much for your clear answer. I got more understanding about your tool now!

Have a good day :)