Load GSE dataset in R

Question

[Ripon]

I'm trying to load GSE147507 dataset in R. But it loads with zero rows (marked as yellow inside image). Here is my code.

library(GEOquery)

gse <- GEOquery::getGEO("GSE147507", GSEMatrix = TRUE)
show(gse)

And R output...

Can anyone help me out?

[sgallaher03]

If you download the tsv files you can load them all into R - check out this reply on stack overflow it might help you out

https://stackoverflow.com/questions/57242335/import-multiple-tsv-files-at-once-as-data-frames

Answer 1

[Kevin Blighe]

Hi,

It is a bulk RNA-sequencing study; so, GEOquery will not 'work'.

You need to obtain the TSV files and load them into R manually.

Kind regards, Kevin