[BioC] time series analysis

[James W. MacDonald]

Hi Ozge,

Ozge Gursoy-Yuzugulu wrote:
> Hello,
> 
> I am working on 2 isogenic cell lines which are treated with a 
> certain chemical and 24h, 48h, and 72 hour samples are taken. We now 
> have 12 arrays (4x 3 time points) and its duplicate. I searched for 
> some methods for the analysis of this kind of data, yet I could not 
> find one.
> 
> Could you please advise me the most convenient R package and 
> statistical method to perform such an analysis...

Convenient? I can point to something that is practical/useful/accurate, 
but if you want convenience you might want to look elsewhere ;-D

Bioconductor has what we call biocViews, which has a web-based interface 
that one can use to find packages of a certain type. If I look for 
TimeCourse packages, I end up here:

http://www.bioconductor.org/packages/1.9/TimeCourse.html

The starting point is

http://www.bioconductor.org/packages/1.9/BiocViews.html

Another R-based but non-BioC package is the EDGE package of John Storey. 
You can find that by googling his name.

Best,

Jim


> 
> Thank you all,
> 
> Ozge
> 
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-- 
James W. MacDonald, M.S.
Biostatistician
Affymetrix and cDNA Microarray Core
University of Michigan Cancer Center
1500 E. Medical Center Drive
7410 CCGC
Ann Arbor MI 48109
734-647-5623


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