Distribution of cell numbers in Seurat

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4.5 years ago

mvis1231 ▴ 140

Dear all,

I have been following this Seurat tutorial: https://satijalab.org/seurat/v3.1/pbmc3k_tutorial.html

When I do quantile(object$nFeature_RNA), I can check the distribution of number of genes detected in each cell. Also, quantile(object$nCount_RNA) gives me the distribution of number of UMI.

But, how can I get the distribution of number of cells in this case?

I have been trying to look at meta data, but I am struggling to get the information. Any idea or hint will be greatly appreciated. Thank you!

scRNA-seq Seurat R nFeature_RNA nCount_RNA • 2.2k views

ADD COMMENT • link 4.5 years ago by mvis1231 ▴ 140

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Can you elaborate what you mean by "distribution of cells"? The number of cells is the number of columns of the Seurat object.

ADD REPLY • link 4.5 years ago by ATpoint 85k

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That's what I was asked, but I am also being confused.. If we calculate the sum of each column (each cell), then the number is nCount_RNA, right?

ADD REPLY • link 4.5 years ago by mvis1231 ▴ 140

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