Count tables and Nomalizated count- Metaanalyst

[bio001]

Hello everyone,

I’m trying to run a meta-analysis on RNA-seq data, but I’m encountering some issues because my input data is a bit different. I have several count tables (raw data) as well as normalized data. My question is: is it possible to perform a meta-analysis by mixing raw data with normalized data?

One of the options I see is to normalize the raw counts, but my normalized tables are in RPKM format. Could this cause a problem?

Is it better to conduct the meta-analysis using only raw data or only normalized data?

Thank you! I appreciate your explanation, as this is my first meta-analysis.

[jeff.xia]

You should use raw count data as much as possible. If some data is already normalized, you need to process other data in the same way before meta-analysis

See below, only these normalization methods are supported if you upload mixed data types

[bio001]

Jeff, thank you.
It was what I feared, I appreciate your response.