Question: Taking scores from DiffBind for other analysis?
0
gravatar for Roman Hillje
12 months ago by
Roman Hillje40
Milan, Italy
Roman Hillje40 wrote:

Hi guys,

Can anybody tell me if it's legitimate to extract the Score values from the DiffBind analysis and use them for down-stream analysis? Let's say I want to do GSEA with the H3K4me3 signal in all TSS regions. Could I take the Score column (which you find directly before the RPKM column)? Or are those values transformed for a specific method, e.g. edgeR?

For reference, I'm using DBA_SCORE_TMM_READS_FULL (which I assume is relevant for the calculation of the scores) and DBA_EDGER.

What I can say already is that the outcome is different when using score or RPKM.

Thanks!

chip-seq diffbind • 275 views
ADD COMMENTlink written 12 months ago by Roman Hillje40
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1898 users visited in the last hour