[BioC] LPE package for cDNA array?

[huj at sciosinc.com]

Sean,

Thanks for your info.  It seems LPE currently only supports oligo arrays.  
Has anybody used LPE for cDNA array?  If not, what is the best alternative 
for cDNA array analyses with a few replicates (3-4)?  Thank you very much.

Jeff



Sean Davis <sdavis2 at mail.nih.gov> 
08/24/2004 03:16 AM

To
huj at sciosinc.com
cc
<bioconductor at stat.math.ethz.ch>
Subject
Re: [BioC] How to get LPE package






Jeff,

I didn't try to getBioC for LPE recently (last few days), but it has 
generally been included.  You can always get source from:

http://www.bioconductor.org/repository/release1.4/package/html

Other packages to consider are many but to name some (probably not 
complete):  limma (my favorite), siggenes (includes SAM), multtest, 
ebarrays, factorial design, general anova and various statistical tests 
included with R, as well as the possibility of creating your own.

Sean

On Aug 23, 2004, at 5:20 PM, huj at sciosinc.com wrote:

> Hi all,
>
> I would like to try LPE for cDNA microarray data analysis.  Can anyone
> please tell me how to install this package?  The package list for
> getBioC() does not seem to include this package.
>
> Also, since I am fairly new to this field, is this a good test for
> identifying significant differentially expressed genes in cDNA 
> microarray
> experiments? what are the alternatives?
>
> Thank you very much in advance,
>
> Jeff
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