Question: Seurat Violin Plot shows counts LESS than 0?
0
gravatar for psm
7 months ago by
psm50
psm50 wrote:

Hi guys,

When exploring certain genes on Single Cell RNAseq datasets, I've noticed that Seurat violin plots often show gene expression BELOW zero. Is this just a jitter effect? Because I've also noticed that in some cases the cells stack near the zero line too (which would be unexpected of jitter). I uploaded an example here:

gene-for-Bio-Stars

Thanks in advance.

rna-seq • 478 views
ADD COMMENTlink modified 7 months ago by Bastien Hervé4.9k • written 7 months ago by psm50
1

What is the command line used to plot this violin plot ?

Take a look here : https://github.com/satijalab/seurat/issues/1534

ADD REPLYlink written 7 months ago by Bastien Hervé4.9k

That post has solved my problem. Thank you - I feel silly for not having found that myself!

ADD REPLYlink written 7 months ago by psm50
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