Question: two 450K methylation array manifests. where is the difference?
1
gravatar for Pablo marin-garcia
3.3 years ago by
United Kingdom
Pablo marin-garcia90 wrote:

What is the difference between this two annotation files for illumina 450 methylation array?

IlluminaHumanMethylation450kmanifest: annotation files for the 450k array.

IlluminaHumanMethylation450kanno.ilmn12.hg19: annotation files for the 450k array.

 

Seems that in minfi both are used.

qcReport() calls getManifest(object) that uses ‘IlluminaHumanMethylation450kmanifest’

but 

mapToGenome(RSet) uses IlluminaHumanMethylation450kanno.ilmn12.hg19

 

methylation 450k • 605 views
ADD COMMENTlink modified 3.3 years ago • written 3.3 years ago by Pablo marin-garcia90
Answer: two 450K methylation array manifests. where is the difference?
2
gravatar for James W. MacDonald
3.3 years ago by
United States
James W. MacDonald50k wrote:

One (IlluminaHumanMethylation450kmanifest) is a subset of the other (IlluminaHumanMethylation450kanno.ilmn12.hg19). Both contain the manifest object, but the latter has other data that the authors have added. The package insert for IlluminaHumanMethylation450kanno.ilmn12.hg19 has most of the details.

ADD COMMENTlink written 3.3 years ago by James W. MacDonald50k
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