Are you remembering to attach the Biobase package to your R session?
> AnnotatedDataFrame()
Error in AnnotatedDataFrame() :
could not find function "AnnotatedDataFrame"
> suppressPackageStartupMessages({ library(Biobase) })
> AnnotatedDataFrame()
An object of class 'AnnotatedDataFrame': none
Biobase is a Bioconductor package, so support questions should more
appropriately go to https://support.bioconductor.org
Martin
On 7/17/19, 4:20 PM, "R-help on behalf of Spencer Brackett"
<r-help-boun...@r-project.org on behalf of spbracket...@saintjosephhs.com>
wrote:
Good evening,
I downloaded the Biobase package in order to utilize the ExpressionSet and
other features hosted there to examine annotations for probeset data, which
I seek to visualize. I currently have pre-analyzed object located in my
environment containing said probeset info, along with gene id and location.
After experimenting with the following approaches, I'm am at a loss for as
to why the AnnotatedDataFrame function is not being recognized by R.
##Example of some of my attempts and their respective error messages##
>AnnotatedDataFrame()
Error in AnnotatedDataFrame() : could not find function
"AnnotatedDataFrame"
signature(object="assayData")
object "assayData"
> annotatedDataFrameFrom("assayData", byrow=FALSE)
Error in annotatedDataFrameFrom("assayData", byrow = FALSE) :
could not find function "annotatedDataFrameFrom"
>as(data.frame, "AnnotatedDataFrame")
Error in as(data.frame, "AnnotatedDataFrame") :
no method or default for coercing “function” to “AnnotatedDataFrame”
Best,
Spencer
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PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
