extracting count matrix from GEO

Question

[lordoftheflower]

Hi

I would like to extract count matrix data from "GSE98969" however when i did expr(), there is no data at all. May i know if i am missing out something?

data = getGEO("GSE98969") datExpr = exprs (data[[1]]) dim(datExpr) [1] 0 97

or does it mean only raw files were uploaded. thanks

Answer 1

[Kevin Blighe]

Indeed, there does not seem to be any normalised data for this study, neither in the FTP record. You could check other websites where the authors may have hosted it; otherwise, re-processing from raw data is necessary.

You could, of course, also ask the authors directly.

Kevin

[lordoftheflower]

thanks Kevin; will process the raw data again