Could not find function "getGEO" though installed GEOquery with latest version of Rstudio

General
#1

if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")

BiocManager::install("GEOquery")

library(GEOquery)

gse <- getGEO("GSE90496", GSEMatrix=TRUE, getGPL=FALSE)

This returns the error message "Error in getGEO("GSE90496", GSEMatrix = TRUE, getGPL = FALSE) :
could not find function "getGEO"

I can't figure out why R won't let me use this function, I'm using the latest version of Rstudio so I can't update and try again.. if someone can please help? Thank you so much.

#2

Do you get any error message when you install or load the package?

#7

This topic was automatically closed 21 days after the last reply. New replies are no longer allowed.

#3

Hi Andres, the error message says,

library(GEOquery)
Error: package or namespace load failed for ‘GEOquery’ in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]):
namespace ‘rlang’ 0.4.5 is already loaded, but >= 0.4.6 is required

#4

There's your problem !

#5

Try to update rlang package as requested by the error message.

install.packages("rlang")

Do you get any error message while doing so?

#6

I needed to update 2 packages in GEOquery, "vctrs" and "rlang" so I remove.packages() then install.packages() and loaded the GEOquery library again, now it worked.
Thank you so much!!