Projects in Awesome Lists tagged with imagej2
A curated list of projects in awesome lists tagged with imagej2 .
https://github.com/morphonets/SNT
The ImageJ framework for quantification of neuronal anatomy
fiji imagej imagej2 janelia neuroanatomy-toolbox neuron-reconstruction neurons neuroscience scijava
Last synced: 07 May 2025
https://github.com/tferr/scripts
:microscope::cocktail: Home of the ImageJ BAR: A collection of Broadly Applicable Routines for ImageJ
beanshell clojure groovy ijm image-analysis imagej imagej2 java jython microscopy python ruby scientific-workflows scripts-collection
Last synced: 14 Apr 2025
https://github.com/himsr-lab/cu-cellseg
Cell segmentation of multi-channel images
akoya-biosciences batch bio-formats cell-matrix cell-segmentation cells cytoplasm ihc imagej2 immunohistochemistry ionpath macro membrane mibiscope multi-channel nuclei pixel-classifier polaris trainable-weka-segmentation vectra
Last synced: 31 Jan 2026
https://github.com/hadim/mm_scripts
A collection of scripts related to Micro-Manager.
fiji imagej imagej2 java micro-manager microscope
Last synced: 21 Jan 2026
https://github.com/himsr-lab/cu-iscore
IHC scoring of multi-channel images
akoya-biosciences batch bio-formats dab hematoxylin ihc imagej2 immunofluorescence immunohistochemistry ionpath macro mibiscope multi-channel polaris scoring staining vectra
Last synced: 03 Jan 2026
https://github.com/imcf/python-micrometa
:coffee: :snake: :microscope: Package for processing metadata from various light-microscopy related data formats.
imagej2 jython jython-library python27
Last synced: 06 Feb 2026
https://github.com/imcf/jython-ome-model
:coffee: :snake: :microscope: :bookmark: :bookmark_tabs: A mavenized package of the Open Microscopy Environment "ome-model" Python module to be used in ImageJ2.
imagej imagej2 jython metadata ome ome-metadata ome-model python
Last synced: 01 May 2026
https://github.com/himsr-lab/cu-macrolibrary
ImageJ2 macro library with variables and functions
cu-cellseg cu-iscore fiji imagej2 library macro
Last synced: 03 Jan 2026
https://github.com/berdal84/mageek-java
Mageek is an ImageJ Java plugin to batch process microscope images
Last synced: 17 Jan 2026
https://github.com/jdebes/image-segmentation-imagej-plugin
ImageJ plugin containing a collection image segmentation algorithms.
image-processing image-segmentation imagej-plugins imagej2 region-growing region-growing-segmentation
Last synced: 23 Jan 2026
https://github.com/imcf/jython-scijava-logging
:snake::coffee::bookmark_tabs: Jython package for using SciJava's LogService for logging.
imagej2 jython jython-library logging scijava
Last synced: 02 Feb 2026