[BioC] How to objectively evaluate chip quality?

Steve Lianoglou mailinglist.honeypot at gmail.com
Tue Jul 15 19:53:39 CEST 2008

On Jul 15, 2008, at 1:35 PM, simona dalle carbonare wrote:

> Hi,
> I have a question about quality assessment of microarray chips. Can  
> somebody
> suggest me a quantitative metric to evaluate the chips and in  
> particular the
> plot about the quality of the chip (for example boxplot of intensity)?

"Quality control through Data Exploration" section of the `affy`  
vignette in the `affy` library:

and the `QualityAsses` vignette in the `affyPLM` library:

address QA issues a bit and include several visualizations. Is that  
what you had in mind?


Steve Lianoglou
Graduate Student: Physiology, Biophysics and Systems Biology
Weill Cornell Medical College


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