BioVoxxel Tools

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:

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.

Code on Github

Documentation

DOI

Please cite the tool

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.

Code on Github

Documentation

DOI

Please cite the tool

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

Maven Repository

Documentation