Question: Reading Clariom D Human CEL files results in missing CDF enviroment error
5
gravatar for jonifg
15 months ago by
jonifg40
jonifg40 wrote:

Hello!

I am trying to analyze CEL files for the Clariom D human platform (Clariom_D_Human). Trying to use the ReadAffy function or read.celfiles from oligo, both result in a missing CDF enviroment error.

batch = ReadAffy(filenames = celFiles, phenoData = phenodata)

"missing cdf environment! in show(AffyBatch)"ERROR while rich displaying an object: Error in getCdfInfo(object): Could not obtain CDF environment, problems encountered: Specified environment does not contain clariomdhumanhsgenecodegcdf Library - package clariomdhumanhsgenecodegcdf not installed Bioconductor - clariomdhumanhsgenecodegcdf not available

Of course I haven't found the clariomdhumanhsgenecodegcdf, I've also tried with the argument cdfname = 'pd.clariom.d.human' (in case the platform description would be useful here) but this doesn't work either.

I found a custom CDF package in [http://brainarray.mbni.med.umich.edu/Brainarray/Database/CustomCDF/21.0.0/genecodeg.asp][1] but I am unable to properly install it or call it.

How can I install this enviroment?/Load the batch?

Thank you for the help!

ADD COMMENTlink modified 15 months ago by R.Blues90 • written 15 months ago by jonifg40
0
gravatar for R.Blues
15 months ago by
R.Blues90
Somewhere
R.Blues90 wrote:

Mmmmm. Have you tried taking a look at their CustomCDF package? Maybe there is something on it that you can use http://brainarray.mbni.med.umich.edu/Brainarray/Database/CustomCDF/CDF_download.asp#v22

Please let us know if that worked! :)

ADD COMMENTlink modified 15 months ago • written 15 months ago by R.Blues90
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 2105 users visited in the last hour