[ome-users] OMERO R interface

[Chris Allan]

Hi all,

We certainly have R on our list of statistical packages to look at integrating with in the coming releases. At present we don't have any "official" way of doing this but any suggestions or feedback from R aficionados is definitely welcomed.

-Chris

On 29 Jul 2011, at 12:46, Gregory Jefferis wrote:

> We are hesitating about whether to switch to OMERO for handling our own large confocal image collection. We do a lot of post-hoc image analysis and R is our glue platform for batch processing and final analysis. I would therefore be interested to hear about this. What I can add is that there are some existing bridges between R and ImageJ, but I have not got round to trying these myself:
> 
> http://cran.r-project.org/web/packages/RImageJ/index.html
> http://bio7.org/
> 
> You might then be able to load images from/into R via the ImageJ OMERO plugins.  
> 
> There are also RODBC and RpgSQL packages on CRAN that will let you talk directly to the postgresql database.
> 
> Best wishes,
> 
> Greg.
>> 
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>> 	Julio Mateos Langerak
>> 29 July 2011 12:27
>> 
>> Hi everyone,
>> 
>> Is there, or is someone working on a way to interface R with OMERO. The idea is use R to analyze the (meta)data linked to the images. In particular those coming from the high content screenings.
>> 
>> Thanks,
>> 
>> Julio
>> __________________________________________
>> Julio Mateos Langerak, PhD.
>> OMX manager
>> Arnaud de Villeneuve Campus Imaging Facility
>> Montpellier RIO Imaging
>> Montpellier BIOCAMPUS, UMS3426
>> Institut de G?n?tique Humaine-CNRS
>> 141, rue de la Cardonille
>> F-34396 Montpellier (France)
>> e-mail: Julio.Mateos-Langerak at igh.cnrs.fr
>> phone: +33.4.34.35.99.90
>> fax: +33.4.34.35.99.01
>> URL: http://www.mri.cnrs.fr/
>> __________________________________________
>> 
>> 
>> 
>> 
>> 
>> 
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> 
> -- 
> Gregory Jefferis, PhD                      jefferis at mrc-lmb.cam.ac.uk
> Division of Neurobiology                   LMB Lab:   +44 (0)1223 252943
> MRC Laboratory of Molecular Biology,       LMB Office:+44 (0)1223 252944
> Hills Road,                                LMB Fax:   +44 (0)1223 402310
> Cambridge, CB2 0QH, UK.                    
> 
> http://www2.mrc-lmb.cam.ac.uk/group-leaders/h-to-m/g-jefferis
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> http://flybrain.stanford.edu
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