I am downloading GEO datasets using GEOQuery in bioconductor.
For most GEO datasets this works well.
For GEO GSE39278 however no expression data is parsed from the GEO dataset.
The R code that I am using is below. The study is downloaded and the metadata is parsed succesfully. The expression table however only contains the sample id's and no probes or expression data.
Is there something wrong with the dataset or am I missing something in GEOquery?
geo_id <- "GSE39278"
gseList <- getGEO(geo_id)
gse <- gseList[]
pd <- pData(gse)
expressionTable = exprs(gse)