Methylation analysis plroblem
Hello, I am performing a differential methylation analysis using the RnBeads package. I generated volcano plots to visualize differential methylation at gene level. However, I am unsure why the volcano plots appear unusual when I use adjusted p-values. In addition, I am uncertain whether it is more appropriate to use M-values or beta-values on the x-axis. When I use beta-values, the values appear very close to each other. Could someone please help me troubleshoot this issue?
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Should I Use p-value or Adjusted p-value for Differential Methylation Analysis (Illumina EPIC v2)?
written by Srinka •
-
Empty Results from champ.DMP Despite Expected Output
written by Hiam •
-
IDAT or Txt MINFI or LIMMA?
written by ananta.kapoor •
-
Beta-value versus M-value for DMR
written by adeizadavid •
-
Adjust Y axis scale in ggplot2
written by santiagoboccardo31 •
-
METAL for EWAS
written by Basti •
-
Why do I get a big log fold change but small mean change in b value when plotting differential meth…
written by Christine •
-
Beta values for hyper- and hypo- methylated probes
written by rasii •
-
Do I have to use beta-values/m-values for RRBS/WGBS data ?
written by Tori
-
DNA methylation analysis with RnBeads: start analysis from Beta-values
written by Chip
