Discover imagej/imagej-notebook Open Source project

Public domain software for processing and analyzing scientific images

1,110

ImageJ

491

pyimagej

Use ImageJ from Python

ImageJ2 programming examples

440

tutorials

ImageJ Ops: "Write once, run anywhere" image processing

173

imagej-ops

[OBSOLETE] Please use https://github.com/imagej/ImageJ instead.

ImageJA

imagej-server

A RESTful web server for ImageJ [EXPERIMENTAL]

Simple Maven project for an ImageJ 1.x plugin

example-legacy-plugin

Simple Maven project for an ImageJ2 command

example-imagej2-command

ImageJ/TensorFlow integration library

imagej-tensorflow

Use ImageJ functionality from napari

napari-imagej

imagej.github.io

The ImageJ wiki

ImageJ-specific applications of the SciJava script languages

imagej-scripting

The ImageJ native launcher

imagej-launcher

ops-experiments

EXPERIMENTAL repository for exploring Ops approaches, algorithms, etc.

ImageJ+ImageJ2 compatibility layer

imagej-legacy

Workshop materials for "Images to Knowledge with ImageJ and Friends" 2020 conference

i2k-2020-pyimagej

Workshop materials for "Images to Knowledge with ImageJ and Friends" 2018 conference

i2k-2018

MATLAB integration with ImageJ data structures and runtime.

imagej-matlab

Server- and client-side communication between ImageJ and OMERO

imagej-omero

The automatic updater for ImageJ

imagej-updater

Workshop materials for "I2K 2022: From Images to Knowledge" conference

i2k-2022-pyimagej

imagej-common

ImageJ core data model

ImageJ UI for Java Swing.

imagej-ui-swing

Example project demonstrating how to package ImageJ scripts into a single jar file

example-script-collection

[EXPERIMENTAL] Electron app embedding ImageJ + JS image visualization tools

imagej-electron-app

ImageJ module for node.js

imagej-node

ITK integration for ImageJ

imagej-itk

Envisaje: A NetBeans RCP application prototype for ImageJ [UNMAINTAINED]

envisaje

imagej-modelzoo

The update sites ImageJ2 knows about automatically

list-of-update-sites

An ImageJ command that mixes Kotlin and Java code

example-imagej2-command-kotlin

Kotlin

ij1-patcher

Extension points for ImageJ via runtime patching to support (limited) headless operation and ImageJ2's legacy layer

A library to facilitate efficient chaining of modules and plugins with various inputs and outputs [UNMAINTAINED]

workflow

Data structures and I/O for meshes

imagej-mesh

Unit tests for ImageJ 1.x

ij1-tests

ij1-installer

OBSOLETE

[OBSOLETE] All goals migrated to scijava/scijava-maven-plugin

imagej-maven-plugin

Batch Processor Plugins for ImageJ

imagej-plugins-batch

Migration repository for imagejdocu.list.lu

imagejdocu

Interactive toy repository to demonstrate troubleshooting techniques.

imagej-troubleshooting

Web-based workflow editor using Yahoo! Pipes [UNMAINTAINED]

workflow-pipes

imagej-plugins-commands

Core ImageJ commands

ImageJ2: ImageJ for the next generation of scientific image data

imagej2-manuscript-2017

presentations

ImageJ presentations

Simple example of calling Bio-Formats with ImageJ 1.x + Java 6

example-bio-formats-legacy-plugin

OBSOLETE - Use https://github.com/scijava/pom-scijava instead!

pom-imagej

imagej-command-archetype

Maven archetype for a SciJava/ImageJ2 Command

[EXPERIMENTAL] An example using ImageJ in an Android project

example-android-app

A multi-level, tile-based zoomable viewer [UNMAINTAINED]

zoomviewer

A plugin for displaying ImageJ images using VisAD in a freeform way [UNMAINTAINED]

visad-plugin

Mirror of the MBF ImageJ manual

mbf

Docker-based test infrastructure for ImageJ Updater

imagej-updater-tests

imagej-opencv

Convert between OpenCV and ImgLib2 data structures

Configuration files for ImageJ resources

dotfiles

imagej-plugins-search-biii

ImageJ Search Plugin for BIII.eu

imagej-onnx

I/O plugins for ImageJ meshes and related data structures

imagej-mesh-io

imagej-plugins-tools

Core ImageJ tool plugins

Deprecated ImageJ packages

chocolatey-packages

PowerShell

imagej-deprecated

This is shinybot, the trusty historian for #imagejdev and #fiji-devel on freenode [RETIRED]

irc-bot

Ruby

janelia-hackathon-2016

Hacking at Janelia Research Campus, June 19 - 27, 2016

Utility for browsing, learning about and running all available Ops

op-finder

Final version of MediaWiki imagej.net

imagej-wiki-static

tickets

Archived static HTML version of legacy ImageJ Trac tickets

ImageJ 1.x support for ImageJ-OMERO

imagej-omero-legacy

Where I'm working on integrating pytorch and imagej (via pyimagej). This repo is experimental.

pyimagej-dextr

Retired ImageJ2 mailing list archives

pipermail

imagej-ui-awt

ImageJ UI for Java AWT.

[OBSOLETE] Please use https://github.com/imagej/ImageJ instead.

ij1-builds

Shell

ImageJ search portal

ImageJ conference materials

conference

ImageJ organization profile

.github

imagej-plugins-uploader-ssh

Core ImageJ uploader plugin: SSH

[ABANDONED] Anonymous usage statistics plugin for ImageJ

imagej-usage

JMH-based benchmarks for projects of https://github.com/imagej/.

imagej-benchmarks

Core ImageJ uploader plugin: WebDAV

imagej-plugins-uploader-webdav

workshops

ImageJ Workshops