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Oshlack / missMethyl

Bioconductor package for analysis of methylation data from Illumina's Infinium HumanMethylation arrays.
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Support on EPIC v2? #20

Open JuliViglino opened 1 year ago

JuliViglino commented 1 year ago

Hi! I wanted to check if missMethyl could be used on the new EPIC v2 array.

I know I can provide a customized annotation dataset (through anno argument), but Im not sure if this is enought for acurate analysis, since the array type must be set to either 450K or EPIC. Mi conserned is based on the fact that the probes present in EPIC v1 and EPIC v2 are quiet different.

 if (!is.null(anno)) {
        out <- getMappedEntrezIDs(sig.cpg = sig.cpg, all.cpg = all.cpg, 
            array.type = array.type, anno, genomic.features = genomic.features)
    }
zhen-fu commented 1 week ago

Wondering the same thing! Did you figure it out?