Image pre-processing
Image filtering
Image preprocessing
Image postprocessing
Image post-processing
Image manipulation

Batch_Filter_CaseStudy part 2

Bioimage Analyst

We will cover the theory behind some useful image preprocessing operations such as filtering for image restoration and feature enhancements, illumination compensation and background correction. We will then combine these operations and write a complete image analysis macro including image correction and 2D stitching of images coming from a large multiposition experiment.

Automated workflow for parallel Multiview Reconstruction


Automated workflow for performing multiview reconstruction of large multiview, multichannel, multiillumination time-lapse SPIM data on a high performance computing (HPC) cluster or on a single workstation. 



Set of Tools for super resolution microscopy



Preprocessing step for high-density analysis methods in super resolution localisation microscopy: it aims at correcting artefacts due to these approaches with based on Haar Wavelet Kernel Analysis.

Creating an ImageJ plugin / command


The best way to start writing an ImageJ2 plugin (ImageJ2 developers call it command and not plugin) is to download the example command from github and modify it. There is a video tutorial on the whole workflow on how to do this on youtube.

has function



This is the official website of the GNU Image Manipulation Program (GIMP).

GIMP is a cross-platform image editor available for GNU/Linux, OS X, Windows and more operating systems. It is free software, you can change its source code and distribute your changes.

Whether you are a graphic designer, photographer, illustrator, or scientist, GIMP provides you with sophisticated tools to get your job done. You can further enhance your productivity with GIMP thanks to many customization options and 3rd party plugins.



gimp -i -b '(simple-unsharp-mask "foo.png" 5.0 0.5 0)' -b '(gimp-quit 0)'

More details, see here: GIMP Batch Mode