Estimate cell proportion from beta values using minfi estimateCellCounts?
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@grayapply2009-23154
Last seen 20 months ago

I'm trying to estimate the cell proportion for my DNA methylation data (Illumina Epic Array) using the estimateCellCounts function in the minfi package. However, this function only accepts the rgset object from the raw data. The data I have are only beta values. Is there a way to use this function with beta values or is there a workaround? I've been stuck here for days. A little help would be very much appreciated.

minfi cell proportion estimateCellCounts DNA Methylation • 236 views
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Are you saying that you don't have the raw Idat files, and instead just have a matrix of ratios that you got from somebody?

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