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Posts by chelsey.ju
... Hello, I am using the shinymethyl interface to visualize QC of Infinitum MethylationEPICarray data. I was wondering if there were any known cutoffs used for all of the parameters included in illumina's control probe signals? i.e. bisulfite I, bisulfite II, Negative probe control signal, etc. ...
... Hello, I have performed the following bumphunter script on my data set: dmrs <- bumphunter(gset, design = designMatrix, cutoff = 0.05, B=1000, type="M") I am wondering if the p values received from this need further corrections, or was that already done with the B=1000? furthermore, I did ...
... Hello, I am looking for clarification and explanations for the following output headers of bumphunter DMR analysis: area cluster indexStart indexEnd L cluster p,value p,valueArea Additionally, if a B=1000 permutation cut off ...
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