Question: How to find annotation file version from CDF file
0
gravatar for krithika.gu
3.3 years ago by
krithika.gu250
United States
krithika.gu250 wrote:

Hello,

I have some .CEL files that were profiled on Affymetrix Human Genome Wide SNP 6.0 array. This was done a while back by some one else,  I am trying to back track and find out what annotation file version was used .

There is a CDF File called "GenomeWideSNP_6.Full.cdf" . Is there a way to find out which version of annotation this CDF file contains ?

I tried to read in the CDF into R (using the affxparser) but it crashes every time.

I also tried reading in the header of the CDF file, but that did not have any version information.

Any help on this will be useful.

Thanks !

 

 

 

 

affymetrix snp • 1.1k views
ADD COMMENTlink modified 3.3 years ago by Maxime Lamontagne2.1k • written 3.3 years ago by krithika.gu250
0
gravatar for Maxime Lamontagne
3.3 years ago by
Québec
Maxime Lamontagne2.1k wrote:

The CDF file is (probably) in binary. To read the CDF header, try this:

strings < GenomeWideSNP_6.Full.cdf > GenomeWideSNP_6.Full.txt

head GenomeWideSNP_6.Full.txt

ADD COMMENTlink written 3.3 years ago by Maxime Lamontagne2.1k
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