GEOquerry error, expression dataset is loading as a list
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Entering edit mode
8 months ago

please see here if you need to install GEOquerry library.

library(GEOquerry)
eset <- getGEO("GSE4051", getGPL = FALSE)
exprs(eset)
> exprs(eset)
Error in (function (classes, fdef, mtable)  : 
unable to find an inherited method for function ‘exprs’ for signature ‘"list"’
> pData(eset)
Error in (function (classes, fdef, mtable)  : 
unable to find an inherited method for function ‘pData’ for signature ‘"list"’

As a sanity check I wanted to see if GEOquerry was working properly and I think something is fishy.

> class(eset) == "ExpressionSet"
[1] FALSE

Also in the Environemtn window of Rstudio the eset variable is showing as a Massive list, shouldn't it be some object?

software error • 273 views
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2
Entering edit mode
8 months ago
ATpoint 55k

There is your expression set: eset$GSE4051_series_matrix.txt.gz

> class(eset$GSE4051_series_matrix.txt.gz)
[1] "ExpressionSet"
attr(,"package")
[1] "Biobase"
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0
Entering edit mode

thank you, i apprecaite it

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