Load GSE dataset in R

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...

enter image description here

Can anyone help me out?

r getgeo

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updated 4.7 years ago by sgallaher03 •

• written 4.8 years ago by Ripon •

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

• 0 views • link

written 4.7 years ago by sgallaher03 •

1 answer

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

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written 4.8 years ago by Kevin Blighe

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