Affy's exprs not working.. intensity works..
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@elmiraamiri-15925
Last seen 3.5 years ago

Hi,

I have a recent problem running the exprs() function on an AffyBatch object. Previously, I was able to run it, but all of a sudden, when I run, the following code snippet, I get a list instead of an object. And therefore, when I want to display it in Jupyter notebook, it gives me the following error:

> affy_obj

    AffyBatch object
    size of arrays=1164x1164 features (106 kb)  
    cdf=HG-U133_Plus_2 (54675 affyids)  

> expr = exprs(affy_obj)

    ERROR while rich displaying an object: Error in FUN(X[[i]], ...): attempt to use zero-length variable name

However, if I use intensity() function, it works. Anyone knows what am I missing?

affy exprs intensity • 477 views
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@james-w-macdonald-5106
Last seen 11 hours ago
United States

You have probably loaded a package that masks exprs. There is some package from the tidyverse that will do that, and probably other packages as well. The fix is to specify the package and function directly, using the double colon operator.

affy::exprs(affy_obj)

should work just fine.

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Yes, it works.

Thanks James.

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