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EMBL BioImage Data Analysis



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RT @empleo_mid: Puesto: 1 PhD student position available for "Image analysis of cardiac development in the mouse" - CNIC
About 14 hours, 37 mins ago by: Kota Miura (@cmci_)

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RT @CanonMedicalEDI: Five #vacancies currently open: Image Analysis Scientist, Software Engineer (various) & IT Administrator. Rewarding #H…
About 1 day, 15 hours ago by: Kota Miura (@cmci_)

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@haesleinhuepf @ReynaudEmmanuel @BioImagingUK @BBSRC @NEUBIAS_COST ... and fun!
About 1 day, 16 hours ago by: Kota Miura (@cmci_)

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RT @thewtex: @cmci_ @ProjectJupyter @UCBIDS @stefanvdwalt @cziscience @thefreemanlab @ctrueden @FijiSc @cmci_ sorry about the quality. Here…
About 1 day, 16 hours ago by: Kota Miura (@cmci_)

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@thewtex @ProjectJupyter @UCBIDS @stefanvdwalt @cziscience @thefreemanlab @ctrueden @FijiSc thanks!
About 1 day, 16 hours ago by: Kota Miura (@cmci_)

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@thewtex @ProjectJupyter @UCBIDS @stefanvdwalt @cziscience @thefreemanlab @ctrueden @FijiSc great! do you have an y…
About 1 day, 16 hours ago by: Kota Miura (@cmci_)
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Python <- (ImageJ, R)

Setup and a simple example for parallel use of ImageJ and R from Python (Jython) is documented. See Here.

R and ImageJ

R is a statistical computing package, and ImageJ is image processing and analysis software (actually, R could do image processing and ImageJ could also do statistics, but not usually used and tools are limited). Ideal work is then to somehow combine these two.

Such attempts has not been rare. Several attempts has been made. Project such as RImageJ is one of such.

Recently, an integrated interface is available.


It seems that this project is mostly oriented towards ecology analysis, but the basic concept is to ease passing data between R and ImageJ. There many instructions on example usage of the software.

Java - R JRI - Java/R Interface

Matlab - R

very well documentation comparing Matlab and R.

Linked PDF contains huge number of functions in R equivalent to Matlab functions. Some useful discussions on difference between R and matlab could be found in

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Weblog Archive

blogtng/blogtop.txt · Last modified: 2016/05/24 05:46 (external edit)