====== 3D Fast Filters with JNI ======

**A collection of filters for 3D images using Java Native Interface.**

====== 3D filters ======

Performs various 3D filtering

JNI allows java to call codes written in others languages like C for instance. \\

This plugin perform various 3D filters on 8-bits or 16-bits gray-levels stacks :

  * 3D median
  * 3D mean
  * 3D minimum
  * 3D maximum
  * 3D maximum local
  * 3D tophat (detect bright spots, //TH=I-max(min(I))// )

These C libraries are used by the [[plugin:filter:3d_filters:start| 3D filters]] and replace slow version of the above filters, this is particularly useful for TopHat filtering involving large radii. 

For **linux** copy either //libfilter3d32.so// for 32 bits or //libfilter3d64.so// for  64 bits into your plugins directory. 

For **Windows** copy either //libfilter3d32.dll// for 32 bits or //libfilter3d64.dll// for 64 bits into your plugins directory.

For **Macintosh** copy either //libfilter3d32-mac.so// for 32 bits (rename to //libfilter3d32.jnilib//) or //libfilter3d64-mac.so// for 64 bits (rename to //libfilter3d64.jnilib//) into your plugins directory. (macintosh libraries thanks to Eddie Ma). 

{{:plugin:filter:3d_filters_with_jni:filters3d_.h|filters3d_.h}} and {{:plugin:filter:3d_filters_with_jni:filters3d_.c|filters3d_.c}} are the corresponding C files.


Note that the information will be displayed only in console windows (use java instead of javaw in ImageJ.cfg).

All neighbourhood pixels are computed inside a ellipsoid corresponding to the radii given as parameters.\\


Contact me for any questions or suggestions : {{:plugin:filter:3d_filters_with_jni:email.png|}}

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