Does bsseq package work with technical replicates?
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@wdesouza
Last seen 10 months ago
Brazil

I would like to know whether bsseq package works with technical replicates (i.e. two whole-genome bisulfite sequencing of the same DNA sample). How bsseq deal with replicate information? The code below exemplifies what I have done.

> pData(bismarkBSseq)
DataFrame with 8 rows and 2 columns
             Type         Rep
         <factor> <character>
C1_R1     Control  replicate1
C2_R1     Control  replicate1
T1_R1   Treatment  replicate1
T2_R1   Treatment  replicate1
C1_R2     Control  replicate2
C2_R2     Control  replicate2
T1_R2   Treatment  replicate2
T2_R2   Treatment  replicate2
bsseq WGBS • 565 views
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