How to modify eSet classes (specifically for Minfi)
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@splittinginfinity-11669
Last seen 6 months ago

Dear community,

I have identified some missing probes on the EPIC array for my analysis using Minfi.

Apparently there is no easy way to update this (no mention about this in tutorial or from google). Naively, I've tried to update the Mset object direct as such:

head(featureNames(Mset))
[1] "cg18478105" "cg09835024" "cg14361672" "cg01763666" "cg12950382"
[6] "cg02115394"
featureNames(Mset) <- all_probes
Error in sampleNames<-(*tmp*, value = c("cg18478105", "cg09835024",  :
number of new names (866616) should equal number of rows in AnnotatedDataFrame (866150)

Would appreciate if someone could enlighten me. Thanks!

SI

Minfi eset • 430 views