

From: liliu_1@hotmail.com
To: dtenenba@fhcrc.org
Subject: RE: [BioC] DWD method for batch effect removal
Date: Thu, 8 Aug 2013 14:55:59 -0400




Hi Dan,

Thank you very much. It works well now. Exciting! :)

Now the only concern about this package is the new version still doesn't have those functions which were in the version 1.2.3 as I asked in another day. :(

Thanks again and you are always helpful.

Li


On Aug 2, 2013 9:23 AM, "Li Liu" <liliu_1@hotmail.com> wrote:

Hi,



I am new for R and Bioconductor. I want to use Bioconductor inSilicoMerging package to study batch effects.



When I check from internet I found the package contains the functions of



measureAsymmetry

measureGenesMeanCorrCoef

measureGenesOverlap

measureSamplesMeanCorrCoef

measureSamplesOverlap



These functions can be used to evaluate batch effect removal methods. 
However, the current version of the package doesn't include these 
functions and some plot functions were also removed. I wondering whether
 these functions had been moved to other packages.




It is great appreciate if anyone can help.



Thanks,




> Date: Thu, 8 Aug 2013 10:53:26 -0700
> Subject: Re: [BioC] DWD method for batch effect removal
> From: dtenenba@fhcrc.org
> To: liliu_1@hotmail.com
> CC: bioconductor@r-project.org; jtaminau@vub.ac.be; smeganck@vub.ac.be
> 
> On Thu, Aug 8, 2013 at 10:51 AM, Li Liu <liliu_1@hotmail.com> wrote:
> > Hi Dan,
> >
> > Thank you very much for the detail explanation. I agree it is better to wait
> > for the new version.
> >
> > I saw the new version 1.4.1 was released now. However, it seems couldn't be
> > downloaded.
> >
> 
> I was just able to install it on windows in BioC 2.12.
> 
> Try again with a fresh R session.
> 
> Dan
> 
> 

 		 	   		   		 	   		  
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