[BioC] affy-chp file format

Kasper Daniel Hansen khansen at stat.Berkeley.EDU
Thu Feb 21 06:33:49 CET 2008

On Feb 20, 2008, at 1:15 PM, Bernd Jagla wrote:

> Hi,
> I would like to write out data in the Affy CHP file format. Which  
> function
> within Bioconductor/R that could do this, or do you have any other
> suggestion on how to generate such files?

There are - to my knowledge - no tools in R/BioC for this. The  
natural place for such a function would be affxparser, but we have  
not yet done anything with CHP files. One of the reasons being that I  
have not heard any use cases for this (until now). And your use case  
is rather special - if I understand it correctly you want to produce  
fake CHP files to generate test data for a separate application  
(which I guess have nothing to do with R/BioC).

The relevant thing to do would be to dig into Affymetrix file parsing  
SDK. Good luck, when I last looked, it seemed as if CHP files were a  
bit of a mess.


> I want to create defined test cases for the software we are  
> developing.
> Thanks
> Bernd
> 	[[alternative HTML version deleted]]
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at stat.math.ethz.ch
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives: http://news.gmane.org/ 
> gmane.science.biology.informatics.conductor

More information about the Bioconductor mailing list