Hi, I'm a researcher using DESeq2 for hi-chip differential analysis.
When I performed differential analysis using DESeq2, I found that my data's MA plot is far non-symmetric.(Even for not significant values)
I thought it can happen because it's not RNA-seq data. But I can't explain exactly why.
I have three questions here.
- Does someone know what's the meaning of non-symmetric MA plot in DESeq2 for the data? Can this happen or should I think my data is not good?
- If non-symmetric MA plot like this is not good, can I make it symmetric???
- Can I use DESeq2 for differential loop analysis??(My data's coverage is similar between samples)
Thank you for your help.
A couple of points:
Tooltype post is for advertising/speaking about tools, not for Questions concerning tools. The category for that would be the
Oh, I see.
Thank you very much
Cross-posted at Bioc (it is good practice to link crossposts): https://support.bioconductor.org/p/p134337/