I am applying your great R package GEOquery to get some GEO data. However, I found the exprs function is not working in my case. Can you give me a help. What’s happened here. Thanks.
library("GEOquery") GSE52271 <- getGEO("GSE52271") data <- as.data.frame(exprs(GSE52271[])) phen <- pData(phenoData(GSE52271[]))
After running it, I found ‘data’ is NULL while phen is right. I don’t know why the data is NULL.
OK. Now, It is clear. Thanks @russhh's reply. For NGS dataset, such exp/meth matrix were not provided as the matrix, in which column is sample,row is gene. However, in the last column of the phen files, the exp/meth download links were provided therefore we can download them one by one and then merge them with some way.