Comments (2)
timoast
commented on August 28, 2024
Hi Yoshi, these are essentially the same thing and I will probably change the PBMC vignette in the future to avoid confusion.
The peak_region_fragments comes from the 10x Genomics cell metadata produced by running CellRanger, and nCount_peaks is computed by Seurat (the total number of fragment counts for the cell).
They are highly correlated:
> cor(pbmc$peak_region_fragments, pbmc$nCount_peaks)
[1] 0.9999125You can use either as a latent variable when finding DA peaks
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ymuto802
commented on August 28, 2024
Thank you very much !
Yoshi
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