[BioC] Blobs

[Kasper Daniel Hansen]

Use affxparser

Kasper

On Jul 14, 2008, at 7:42 AM, Steve Lianoglou wrote:

> Hi Mark,
>
> On Jul 13, 2008, at 6:58 PM, Mark Cowley wrote:
>
>> There's also MblobR.
>> reference:
>> Song, J. S.; Maghsoudi, K.; Li, W.; Fox, E.; Quackenbush, J. & Liu,  
>> X. S.
>> Microarray blob-defect removal improves array analysis.
>> Bioinformatics, 2007, 23, 966-971
>
> I just downloaded this to check it out ... have you been using it  
> all? After downloading all the dependency jars[1], I realized that  
> it only opens CEL files saved as version 4 (the binary one), while  
> the files I have are version 3[2].
>
> Do you (or anybody else) know if there is an easy way to convert  
> between versions of CEL files?
>
> Thanks,
> -steve
>
> [1] For anybody else who's trying to run this, you'll need to have  
> in your classpath:
>  * junit.jar: http://junit.org/
>  * swing-layout.jar: https://swing-layout.dev.java.net/
>
> [2] Affy cel version info: http://www.stat.lsa.umich.edu/~kshedden/Courses/Stat545/Notes/AffxFileFormats/cel.html
>
> --
> Steve Lianoglou
> Graduate Student: Physiology, Biophysics and Systems Biology
> Weill Cornell Medical College
>
> http://cbio.mskcc.org/~lianos
>
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