Seurat Violin Plot shows counts LESS than 0?
0
0
Entering edit mode
4.3 years ago
psm ▴ 130

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 • 4.0k views
ADD COMMENT
1
Entering edit mode

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

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

ADD REPLY
0
Entering edit mode

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

ADD REPLY

Login before adding your answer.

Traffic: 1782 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6