Require suggestion on calculating Mutation Response Index for determining mutational role on bias?

20 November 2019 1 3K Report

I am working on codon usage bias on my species. While other indices and analysis have been carried out successfully, I have a confusion regarding the MRI calculation.

MRI = SCS - CSCS

For calculating SCS and CSCS, ei ( expected usage of the j th codon under conditions of equal synonymity)and oij ( the number of occurrences of j th codon for the i th amino acid )are required.

I need to know how to calculate ei and oij? Which tools or script to be used?

Thanks

Mallikarjun Beelagi

Orana Rose

DNA

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