two 450K methylation array manifests. where is the difference?
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@pablo-marin-garcia-6030
Last seen 2.4 years ago
United Kingdom

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 • 791 views
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@james-w-macdonald-5106
Last seen 15 hours ago
United States

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.

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