[ome-users] OMERO R interface

[Gregory Jefferis]

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.
> ------------------------------------------------------------------------
>
> 	Julio Mateos Langerak <mailto:Julio.Mateos-Langerak at igh.cnrs.fr>
> 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 Génétique Humaine-CNRS
> 141, rue de la Cardonille
> F-34396 Montpellier(France)
> e-mail: Julio.Mateos-Langerak at igh.cnrs.fr 
> <mailto: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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