Hi,
you should also get the following annotation files:
annotationData/
chipTypes/
GenomeWideSNP_6/
GenomeWideSNP_6,Full,*.acs
GenomeWideSNP_6,Full,*.ugp
GenomeWideSNP_6,Full,*.ufl
as explained in for instance
http://aroma-project.org/vignettes/CRMAv2. You can get them from
http:/
Hi,
The error message says: "Failed to retrieve genome information for
this chip type: GenomeWideSNP_6"
>From your reply to my message in your other thread "Problem with
AffymetrixCelSet cmd" it looks like you are indeed missing annotation
files. (Currently you only have the cdf, which basically
On Mon, Jun 18, 2012 at 1:59 PM, NT_CMU wrote:
> Hi
>
> Thanks for the help Pierre. I managed to resolve it. I am just using the
> AffymetrixCelSet$byName with the cdf information instead of the chipType.
> For some reason, that still refuses to work.
These are the two possible ways to setup the
Hi
Thanks for the help Pierre. I managed to resolve it. I am just using the
AffymetrixCelSet$byName with the cdf information instead of the chipType.
For some reason, that still refuses to work.
Nitesh
On Monday, 18 June 2012 11:39:34 UTC-4, NT_CMU wrote:
>
> Hi
>
> I am new to aroma.affymetr
Hi
I'm trying to run the command "doCRMAv2", and i get these errors. Let me
know what the problem is, if any of you have encountered this before. I
thought i did not have some library installed but, i have both ACNE and
aroma.affymetrix working properly.
> ds <- doCRMAv2("LeeAV_2012",chipType=
Hi Pierre,
Thanks for the reply. My file structure is :
Nitesh-MacPro:Affy6.0 niteshturaga$ ls -R | grep ":$" | sed -e 's/:$//' -e
's/[^-][^\/]*\//--/g' -e 's/^/ /' -e 's/-/|/'
*
*
*|-Affy6.0*
|-Text-Export
*|-annotationData*
|---chipTypes
|-GenomeWideSNP_6
|-Geno
Hi,
On Mon, Jun 18, 2012 at 5:39 PM, NT_CMU wrote:
> Hi
>
> I am new to aroma.affymetrix. I am not sure why the command
> "AffymetrixCelSet$byName" is not working.
>
> cs <- AffymetrixCelSet$byName("test.CEL",chipType =
> "../../annotationData/chipTypes/GenomeWideSNP_6")
This will not work becau
Hi
I am new to aroma.affymetrix. I am not sure why the command
"AffymetrixCelSet$byName" is not working.
cs <- AffymetrixCelSet$byName("test.CEL",chipType =
"../../annotationData/chipTypes/GenomeWideSNP_6")
Error in method(static, ...) :
[2012-06-18 11:34:57] Exception: Failed to create Affym
