Normalization of CLIP peaks by RNA abundance

[Anil Kesarwani]

Hi,
 
I am using CLIPer for iCLIP data analysis. I was wondering how to normalize peaks by transcript  abundance (calculated as FPKM from RNA-seq). I read in several articles that normalization with transcript level could help remove spurious peaks. I therefore performed RNA-seq as well, together with CLIP-Seq for the corresponding sample. Could please help me out. Your any response is highly appreciated.

Thanks.

Best.
Anil