[BioC] Lymphoma data package

Adaikalavan Ramasamy ramasamy at cancer.org.uk
Sat Sep 24 09:19:51 CEST 2005

I think you are having difficulty in locating the dataset because you
are probably looking for a package specifically names 'lymphoma'. 

There is no reason for anyone to dedicate a package just to a dataset,
so searching for lymphoma on http://finzi.psych.upenn.edu/nmz.html gives

DLBCL(ipred)            Diffuse Large B-Cell Lymphoma
DLBCL(maxstat)          Diffuse large B-cell lymphoma
lymphoma(vsn)           Intensity data for 8 cDNA slides with CLL and
                        DLBL samples from the Alizadeh et al. paper in
                        Nature 2000

The most comprehensive of these is the one in Wolfgang Huber's vsn
package. They have only used a subset of 8 arrays but they do provide
the scripts and information on how to obtain and preprocess the files.
You can try to use this information.

Regards, Adai

On Mon, 2005-09-19 at 06:38 -0700, Srinivas Iyyer wrote:
> Dear all
> I was trying to work on some examples using Lymphoma
> (Alizadeh et al :http://llmpp.nih.gov/lymphoma/). 
> However, I did not find this lymphoma package
> anywhere. 
> I see there are lot of cDNA files. what is the
> procedure to convert these files into a lymphoma
> package.
> or 
> Is there any other way to read all the raw datafiles
> into R and work on them instead of using lymphoma
> package. 
> Where can I find the steps in this procedure.  
> Please help me and I am very stuck.
> thanks
> srini
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