[BioC] R: array CGH

[Alberto Goldoni]

There are tho main packages: GLAD (plus MANOR for the qualità test) and
aCGH

Best regards

Dr Alberto Goldoni

Medical Genetics Unit

S. Orsola-Malpighi Hospital

Via Massarenti n.9, Pad 11

40100 Bologna, Italy

Mobile Phone: +39-338-4145970

Fax: +39-051-636-4004

alberto.goldoni at eurogene.org

www.eurogene.org

www.lagem.it


-----Messaggio originale-----
Da: bioconductor-bounces at stat.math.ethz.ch
[mailto:bioconductor-bounces at stat.math.ethz.ch] Per conto di Lisa Luo
Inviato: venerdì 13 ottobre 2006 5.34
A: bioconductor
Oggetto: [BioC] array CGH

Dear List,

I have a set of BAC array CGH data to analysis.  I am new to this kind
of analysis.  Could anyone please recommend me a good package?

I read some papers on aCGH.  For the size of BAC clones, is averaging a
few probes a good idea?  I tried DNAcopy and I am not happy with the
results either.  Another question:  Can we use the ratio to call it
amplification or deletion?  In my normal samples, I should expect ratio
to be about 1.  But ratios in some probes/chromosomes tend to be high
and ratios in another probes/regions tend to be lower.  So how to use
the ratio?

Thank you so much for your help!

Lisa

 		
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