Deleted:Converting large GSM from GEOquery into a minfi or limma workable set
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6 weeks ago
Edward E-B • 0

I have used GEOquery to obtain processed methylation data from a single sample on GEO that contains 450k methylation array data. The data consists of a dataTable with columns for VALUE (normalised beta value) and ID_REF (for each CpG probe) and a header containing some metadata about the sample. I can't seem to work out how to use this data in minfi or limma! I want to be able to look for differentially methylated positions and regions and compare data between samples.

minfi methylation limma GEOquery R • 231 views
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