Hi! what you need to do is to prepare a set of files, one file per sample, 
with two
columns: gene identifier (eg RefSeq ID) and tag count - remember you always 
need to
start from tag count with edgeR

NM_01224     134
NM_86659     23
NM_34567     800
...

and so on

Let's assume that you have four files names A.txt, B.txt, C.txt, D.txt

You need to prepare in R a simple list

library(edgeR)

files <- c("A.txt","B.txt","C.txt","D.txt")

DG <- readDGE(files,header=FALSE)

And then you can proceed with the analysis - any subdivision can be done
at the difflist level or beyond

HTH

Alessandro


-----------------------------------------------------
Alessandro Guffanti - Bioinformatics, Genomnia srl
Via Nerviano, 31 - 20020 Lainate, Milano, Italy
Ph: +39-0293305.702 Fax: +39-0293305.777
http://www.genomnia.com
"If you can dream it, you can do it" (Walt Disney)

-----Original Message-----
 From: "Wang, Li" <li.wang@ttu.edu>
 To: "bioconductor@r-project.org" <bioconductor@r-project.org>
 Date: Wed, 11 Apr 2012 13:42:18 -0500
 Subject: [BioC] edgeR reading data


Dear List

 I am a very starter in edgeR analyses.
 When reading through the User Guide and homepage of edgeR, I didnot find 
any examples of the importing data.
 My RNA-seq data can be divided into two groups, which then could be divided 
into two subgroups. And each subgroup has 8 replicates.
 I am writing to ask if someone can  give me a small example of the data 
that could be red in edgeR.

 I would appreciate your help a lot!

 Thanks
 Li
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