Hi Christian,

Thanks for your comment!

I found out that you can use "apt-chp-to-txt" to convert the .cnchp files to txt files and then read them into R.


I was able to load the APT generated .cnchp files into Genotyping Console and using its browser to view the data.

best,

...Tao




________________________________
From: cstrato <cstrato@aon.at>

Cc: bioconductor@stat.math.ethz.ch
Sent: Fri, January 29, 2010 11:23:22 AM
Subject: Re: [BioC] problems when using "readCcg" in "affxparser" to parse .CNCHP file

Dear Tao,

This is not an answer to your question but  a comment:
Using APT I have created  *.CNCHP files and wanted to import these files 
into the Affy Integrated Genome Browser. Although the IGB could display 
the name of the files, it was not able to display the results.
Thus it seems that .CNCHP files created with APT are not compatible to 
.CNCHP files created with the Genotyping Console, which is really sad 
and may be the reason for your problem.

Best regards
Christian
_._._._._._._._._._._._._._._._._._
C.h.r.i.s.t.i.a.n   S.t.r.a.t.o.w.a
V.i.e.n.n.a           A.u.s.t.r.i.a
e.m.a.i.l:        cstrato at aon.at
_._._._._._._._._._._._._._._._._._


Shi, Tao wrote:
> Hi list,
>
> I found the following problem when using "readCcg" in affxparser package to parse .CNCHP files.
>
[[elided Yahoo spam]]
>
> ======================================================
> Error in dim(value) <- c(nchars, nbrOfRows) : 
>   dims [product 16320969] do not match the length of object [25388174]
> ======================================================
>
>
> Thanks.
>
> ...Tao
>
>
>      
>     [[alternative HTML version deleted]]
>
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