We have obtained a large number of "glue grant array" cel files that are
predecessors
of HTA 2.0.  An informal attempt to process with the gene ST interface in
pdInfoBuilder failed.  We'd
be interested to hear of progress on the HTA 2.0 front.

============================================================
====================
Building annotation package for Affymetrix Gene ST Array
PGF.........: hGlue_3_0_v3.pgf
CLF.........: hGlue_3_0_v3.clf
Probeset....: hGlue_3_0_v1_Lib_v3.hg18.probeset.csv
Transcript..: TheTranscriptFile
Core MPS....: coreMps
============================================================
====================
Parsing file: hGlue_3_0_v3.pgf... OK
Parsing file: hGlue_3_0_v3.clf... OK
Creating initial table for probes... OK
Creating dictionaries... OK
Parsing file: hGlue_3_0_v1_Lib_v3.hg18.probeset.csv... OK
Error in `[.data.frame`(probesets, , cols) : undefined columns selected

[sessionInfo was not forwarded to me.... but more details can be provided
if there is any interest]

On Tue, Sep 10, 2013 at 2:45 AM, Mark Cowley <m.cowley@garvan.org.au> wrote:

> Hi Steven,
> Did you manage to create a pd.hta.2.0 package?
>
> kind regards,
> Mark
>
> On 20/04/2013, at 7:23 AM, Steven McKinney <smckinney@bccrc.ca> wrote:
>
> > Hi all,
> >
> > Has anyone developed bioconductor/R analysis tools for the
> > Affymetrix Human Transcriptome Array HTA_2_0 ?
> >
> > Any information on processing data from this chip type
> > would be appreciated.
> >
> >
> > Best
> >
> > Steven McKinney
> >
> > Statistician
> > Molecular Oncology and Breast Cancer Program
> > British Columbia Cancer Research Centre
> >
> > _______________________________________________
> > Bioconductor mailing list
> > Bioconductor@r-project.org
> > https://stat.ethz.ch/mailman/listinfo/bioconductor
> > Search the archives:
> http://news.gmane.org/gmane.science.biology.informatics.conductor
>
> _______________________________________________
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>

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