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Running Active Module without Expression Data Matrix
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Monsanto  
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 More options Jun 30, 10:17 am
From: Monsanto <xiao.y...@monsanto.com>
Date: Tue, 30 Jun 2009 07:17:45 -0700 (PDT)
Local: Tues, Jun 30 2009 10:17 am
Subject: Running Active Module without Expression Data Matrix
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Hi folks:
   Does anyone know how to the Active Module analysis without
Expression data matrix? I have a network, and a preprocessed gene list
and their corresponding p-values from certain differential expression
analysis. I want to test the enriched modules in the network, but the
software current requires Expression data, which is not what I want.
Please help.

Thanks,


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Mike Smoot  
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 More options Jun 30, 12:46 pm
From: Mike Smoot <msm...@ucsd.edu>
Date: Tue, 30 Jun 2009 09:46:17 -0700
Local: Tues, Jun 30 2009 12:46 pm
Subject: Re: [Cytoscape-discuss] Running Active Module without Expression Data Matrix
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Hi, jActiveModules just requires an attribute of type Double where all of
the values are between 0 and 1.  So, you should be able to load your p-value
as a normal attribute and jActiveModules should see it and be able to run.
If that is not the case, then please send along the files that you're using
so that we can evaluate.

thanks,
Mike

On Tue, Jun 30, 2009 at 7:17 AM, Monsanto <xiao.y...@monsanto.com> wrote:

> Hi folks:
>   Does anyone know how to the Active Module analysis without
> Expression data matrix? I have a network, and a preprocessed gene list
> and their corresponding p-values from certain differential expression
> analysis. I want to test the enriched modules in the network, but the
> software current requires Expression data, which is not what I want.
> Please help.

> Thanks,

--
____________________________________________________________
Michael Smoot, Ph.D.
UCSD School of Medicine
tel: 858-822-4756

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