error on ReadAffry for CEL file
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Entering edit mode
na396 • 0
@na396-20786
Last seen 5.3 years ago

Hello I have some *.CEL files, and I have the error "

Error in read.affybatch(filenames = l$filenames, phenoData = l$phenoData,  : 
  cannot open file 'C:/Users/Neelou/Documents/R/win-library/3.5/affyio/R/affyio.rdb': No such file or directory

I would be grateful if someone can help me. here is my code

source("http://bioconductor.org/biocLite.R")
library(BiocInstaller)
biocLite("affyio")
biocLite("affy")
biocLite("oligo")
biocLite("limma")
library(affy)
#
biocLite("ath1121501.db")
library(ath1121501.db)
#
#install.packages("BiocManager")
BiocManager::install("yeast2.db")
library(yeast2.db)
#
library(genefilter)




print('GSE11651')

#Read CEL files
Affy_obj <- ReadAffy()

affyio.rdb ReadAffy • 737 views
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Entering edit mode
@james-w-macdonald-5106
Last seen 9 minutes ago
United States

You are mixing up installers. And we are on R-3.6.0 now, so install R-3.6.0, then do

install.packages("BiocManager")
library(BiocManager)
install("affy")
library(affy)
affy_obj <- ReadAffy()

and let us know how it goes.

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