[BioC] how to get mismatch probe coordinates

[Laurent Gautier]

ulas karaoz wrote:
> thanks. That is not exactly what i meant, what i meant was given a 
> probe's coordinates from the AFFY files, i.e. HG-U133A_probe_tab, how do 
> I figure out the coordinates for the corresponding mismatch probe.
> Is this info stored somewhere if i read the cdf file with read.cdffile 
> in makecdfenv package?

Yes it is (since the cdfenvs are build from them).

> thanks.
> 
> 
> On Oct 31, 2004, at 8:02 PM, James MacDonald wrote:
> 
>> ?indexProbes
>>
>>
>>
>> James W. MacDonald
>> Affymetrix and cDNA Microarray Core
>> University of Michigan Cancer Center
>> 1500 E. Medical Center Drive
>> 7410 CCGC
>> Ann Arbor MI 48109
>> 734-647-5623
>>
>>>>> ulas karaoz <ulask at bu.edu> 10/31/04 7:19 PM >>>
>>
>> Dear Bioconductor users,
>> Does anyone knows how to get the coordinates (x,y) for a specific chip?
>> Once I know the (x,y) of a match probe, is there any formula to get the
>> (x,y) of the corresponding mismatch probe?
>> thanks.
>>
>> --------------------------------------------
>> Ulas Karaoz
>> Boston University
>> Ph.D.Student in Bioinformatics
>> zlab.bu.edu
>>
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>>
>>
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> --------------------------------------------
> Ulas Karaoz
> Boston University
> Ph.D.Student in Bioinformatics
> zlab.bu.edu
> 
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