[BioC] Workflow for Agilent aCGH anlysis

[Steve Lianoglou]

Hi,

On Tue, Nov 20, 2012 at 7:50 AM, McQueen, Cole <CMcQueen at cvm.tamu.edu> wrote:
> Hi all,
> I am new to Bioconductor and in need of guidance.  I am looking for a workflow(s) for analyzing Agilent 2 color aCGH.  Thank you all very much in advance.

I think you'll find that a google search for "agilent acgh
bioconductor" and "bioconductor acgh workflow" to be quite fruitful.
;-)

There is at least one publication that deals with this expressly:

Analysis of Array-CGH Data Using the R and Bioconductor Software Suite
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2728899/

You'll also find many packages that pop up (such as snapCGH, just to
name one) which also have their own vignettes that act as tutorials on
how to use them, so I guess you will be in pretty good shape.

-steve

-- 
Steve Lianoglou
Graduate Student: Computational Systems Biology
 | Memorial Sloan-Kettering Cancer Center
 | Weill Medical College of Cornell University
Contact Info: http://cbio.mskcc.org/~lianos/contact