[BioC] Finding Annotation of CEL file formats
cstrato at aon.at
Fri Sep 19 19:17:25 CEST 2008
If you have an Affymetrix CEL-file, e.g. Test3.CEL, you can do on Linux:
head -n17 Test3.CEL
For CEL-files of type text or xda you will see on line 15:
DatHeader=[12..40151] Fetal 3:CLS=1167 RWS=1167 XIN=3 YIN=3
VE=17 2.0 08/16/01 17:28:31 Test3.1sq 6
This tells you that the CEL-file uses Test3.CDF as CDF file (Test3.1sq)
and hybridized a "Fetal" tissue
For CEL-files of type Calvin you will see a line:
affymetrix-dat-heade[6..38103] Fetal 5:CLS=1167 RWS=1167 XIN=3 YIN=3
VE=17 2.0 08/16/01 17:32:06 Test3.1sq 6
This has the same information as above.
Then you can check on the Affymetrix web-site, for which organism the
CDF-file was created:
Hope this information is helpful
e.m.a.i.l: cstrato at aon.at
Gundala Viswanath wrote:
> Dear all,
> Given any CEL file, such as these:
> With BioConductor Is there a way we can find:
> 1. Which organism they come from?
> 2. Which organism's tissue they come from?
> 3. What are the probe names/gene name involved?
> I looked at "affy" package but I can't seem to find
> ways to get what I wanted above. But maybe I am wrong.
> - Gundala Viswanath
> Jakarta - Indonesia
> PS: Original URL for the data is this
> Bioconductor mailing list
> Bioconductor at stat.math.ethz.ch
> Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor
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