Thank you Prof. Björn,

Yes they are are  10 identical conditions. But two matrices  are of not the same dimension. A has 1000 genes (rows) and B has 100 metabolites(rows).  

Is there any package available in Bio-conductor or R  for generating gene -metabolite correlation network ?  

Regards,

Pankaj2k3 Pankaj Barah Department of Biology, Norwegian University of Science & Technology (NTNU) Realfagbygget, N-7491 Trondheim, Norway Telephone: (+47) 73 59 86 92 Mobile:      (+47) 45063435 Fax:          (+47) 73 59 61 00 E.mail: pankaj.barah@bio.ntnu.no Homepage:http://www.ntnu.no/employees/pankaj.barah


________________________________
 From: B Usadel <b.usadel@bio1.rwth-aachen.de>

Cc: "bioconductor@r-project.org" <bioconductor@r-project.org> 
Sent: Friday, 2 March 2012 4:13 PM
Subject: Re: [BioC] Gene-Metabolite correlation network


Hi Pankaj

if it is the same 10 conditions, I would merge the matrices. (Otherwise
subset both matrices on the identical conditions)
And then calculate the whole correlation/covariance matrix and extract
the relevant regions, With this small number of genes, it will be done
almost instantaneously.

Cheers,
björn

Hi All, I have two matrices   A and B. 
A contains expression values for 1000 genes in 10 conditions  A[1:1000,1:10]
B contains metabolic profiles of 100 metabolites in 10 conditions B[1:100,1:10] Is there a way that I can calculate gene-metabolite correlation OR co-variance  matrix using A and B ? Thanks Pankaj2k3   [[alternative HTML version deleted]] 
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