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RT @WimJHH: EMBL Heidelberg workshop "Cryo-EM in Industry & Academia", 6-8 February 2019. Success stories, new technologies, industry chall…
About 4 hours, 55 mins ago by: Kota Miura (@cmci_)

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@f_levet @BertrandVernay I made it.
About 5 hours, 45 mins ago by: Kota Miura (@cmci_)

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RT @haesleinhuepf: One more session on #ImageJ short cuts: SHIFT+U opens the command tree. I didn't know this one. Thanks @BertrandVernay a…
About 5 hours, 57 mins ago by: Kota Miura (@cmci_)

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@ManuelTHERY @martinjones78 @NEUBIAS_COST Slowly Manu
About 15 hours, 39 mins ago by: Kota Miura (@cmci_)

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@laure_plantard I can’t track JY himself with Trackmate. Metaphysical contradiction.
About 17 hours, 30 mins ago by: Kota Miura (@cmci_)

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“2 chapters of my dissertation was only possible with Trackmate”
About 18 hours, 59 mins 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)