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Normalization of CLIP peak by transcript level

HI,

I am using Piranha for CLIP-Seq 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 samples. Could some body please help me out. Any response is highly appreciated.

rna-seq

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updated 4.0 years ago by Ram

• written 10.5 years ago by Anil Kesarwani

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