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hansenlab / bsseq

Devel repository for bsseq
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Multiple testing correction #43

Open biohack opened 8 years ago

biohack commented 8 years ago

Hello,

Is there any multiple testing correction implemented in the bsseq pipeline?

Thank you.

kasperdanielhansen commented 8 years ago

We routinely uses permutation testing for analysis. This is easy to implement yourself, but you can have a look at our functions in R/permutations.R which are not yet exported. This functions gives you FWER control with correction for genomewide search, or at least so we believe (there is still some theoretical work to be done on this).

On Thu, Oct 13, 2016 at 2:43 PM, biohack notifications@github.com wrote:

Hello,

Is there any multiple testing correction implemented in the bsseq pipeline?

Thank you.

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