[BioC] Limma B statistic
darlene.goldstein at epfl.ch
Tue Dec 21 16:30:06 CET 2010
Sabrina AT Case <hxs61 at ...> writes:
> Hello, all
> I am using Limma for my array analysis. Based on the user's guide, I
> canconvert B value to probability.
> however, in my results, I have adj.P.Val of 0.007 with B negative. If
> I use the conversion, the probability will be 0.25. But when you look
> at the p value, it passed the significant 0.05 level. How can I
> explain that? Did I misunderstand some points? Thanks
> Bioconductor mailing list
> Bioconductor at ...
> Search the archives:
hi, It looks to me like you are confusing the p (or adj p) value with the B-stat
probability. The (adj) p-value reported in the topTable function is associated
with the mod-t statistic and is not related to the B-stat probability. The
B-stat probability is obtained by converting the log odds ratio to obtain the
Does this clear up your question?
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