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minfiData error using MINFI Package for analysis illumina 450k bead chip data

Hello,

I am learning R using R studio, I am trying to learn DNA methylation data analysis using MINFI package, I have installed the package, the problem is with sample data. I have download the mifiData from Bioconductor web site, and when I run the command > require(minfiData) I get the error below, I am using a mac machine Mavericks 10.9.4, what is going wrong?

Thanks,

> require(minfiData)
Loading required package: minfiData
Loading required package: IlluminaHumanMethylation450kmanifest
Error in gzfile(file, "rb") : cannot open the connection
In addition: Warning message:
In gzfile(file, "rb") :
  cannot open compressed file '/Library/Frameworks/R.framework/Versions/3.1/Resources/library/IlluminaHumanMethylation450kmanifest/data/Rdata.rdx', probable reason 'No such file or directory'
Failed with error:  'package 'IlluminaHumanMethylation450kmanifest' could not be loaded'
software-error genome r
• 3,882 views • link
updated by Ram Ram • written by behrouz.gh • behrouz.gh

1 answer

I found the answer, I should have downloaded 2 additional packages:

  1. IlluminaHumanMethylation450kmanifest; and
  2. IlluminaHumanMethylation450kanno.ilmn12.hg19

now everyone is happy.

• 0 views • link
updated by Ram Ram • written by behrouz.gh • behrouz.gh

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