BioVoxxel provides many free tools to the image analysis community in form of Fiji plugins, scripts and macros. Those tools are already widely cited in scientific literature. Fiji (and specifically ImageJ as basis of Fiji) is one of the most used image analysis software in life sciences. It is free and open source!
can be downloaded here.
Update sites in Fiji can be installed and followed as shown in this instruction.
See short descriptions of the main tool boxes and libraries with further links to source code and documentation by extending the sections below:
BioVoxxel 3D Box
Re-writings of many known BioVoxxel Toolbox functions as well as completely new plugins for 2D and 3D image processing and analysis in one place. All functions are heavily GPU-based via the fabulous CLIJ2 library. Segmentation output is mainly based on labels (intensity coding of objects) instead of ROIs, making it more flexible, and compatible with other image processing tools.
Featured Tool is the Voronoi Threshold Labeler (VTL) for 2D/3D object segmentation.
Short video on some featured functionalities (talk from the I2K conference 2022)
The BioVoxxel Toolbox is an established ImageJ/Fiji suite which contains plugins and some macros dealing with image filtering, image segmentation and binary image processing as well as various analysis tools, such as cluster analysis and comparative object counting and measurements.
BioVoxxel Figure Tools
The BioVoxxel Figure tools should make it easier to create high quality publication figure grade images out of Fiji directly into an SVG vector graphics file which can then be used in Inkscape for further figure creation.
The Excel macro extensions for ImageJ and Fiji are meant to make saving results tables as .xlsx worksheet files and tabs in ImageJ and Fiji easily accessible on various different levels.
<dependency> <groupId>de.biovoxxel</groupId> <artifactId>excel.macro.extensions</artifactId> <version>3.2.1</version> </dependency>
Code on Gitlab