Hi Herve,

calculation of rms values for Input data and subsequent subtraction of IP
and Input rms values is not recommended.
I understand that you would like to identify enriched IP regions over
Input? In section 7.7 of the MEDIPS manual, I briefly discuss experimental
designs and Input data. Hopefully this will be helpful.

Best regards,
Lukas



On Fri, Oct 25, 2013 at 2:31 AM, Herve Acloque [guest] <
guest@bioconductor.org> wrote:

>
> I'm actually using MEDIPS to perform genome-wide methylation profile in
> satellite cells from normal animals. I have got a question regarding the
> way to normalize experimental rms regarding input rms. Is it possible to
> substract rms input score from the corresponding rms experimental
> condition? I was wondering whether it could be better to perform a
> differential coverage between experimental and input conditions and to keep
> only DMR regions.
>
> Thank you for your help
>
> Hervé Acloque
>
>  -- output of sessionInfo():
>
> none
>
> --
> Sent via the guest posting facility at bioconductor.org.
>
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