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ImageJ

ImageJ is an open source Java image processing program inspired by NIH Image.

It runs on any computer with a Java 1.8 or later virtual machine.

Downloadable distributions are available for Windows, Mac OS X and Linux.

ImageJ has a strong, established user base, with thousands of plugins and macros for performing a wide variety of tasks.

Fiji is a "batteries-included" distribution of ImageJ, bundling many plugins which facilitate scientific image analysis.

Here are 245 public repositories matching this topic...

Image-Py / imagepy

Image process framework based on plugin like imagej, it is esay to glue with scipy.ndimage, scikit-image, opencv, simpleitk, mayavi...and any libraries based on numpy

opencv imagej scikit-image simpleitk

Updated Oct 28, 2021
Python

qupath / qupath

QuPath - Bioimage analysis & digital pathology

groovy opencv machine-learning imagej javafx image-processing histology cell-segmentation bioimage-informatics digital-pathology pathology whole-slide-imaging cell-analysis computational-pathology bioimage-analysis tissue-microarray-analysis

Updated Jan 6, 2022
Java

cgohlke / tifffile

Read and write TIFF files. Forked from https://pypi.org/project/tifffile

python image imagej numpy tiff format-reader life-sciences-image ome-tiff whole-slide-imaging zarr

Updated Dec 12, 2021
Python

ijpb / MorphoLibJ

Collection of mathematical morphology methods and plugins for ImageJ

imagej fiji image-processing image-analysis mathematical-morphology 3d-images morpholibj

Updated Jan 6, 2022
Java

scenerygraphics / sciview

sciview is a tool for visualization and interaction with ND image and mesh data

visualization imagej fiji image-processing 3d scenery sciview

Updated Dec 20, 2021
Java

knime-ip / knip

KNIME Image Processing Extension

processing java image integration knime analysis imagej imagej2 imglib2 fiji scijava

Updated Jun 17, 2021
Java

mbalatsko / opencv-rolling-ball

Fully Ported to Python from ImageJ's Background Subtractor. Rolling ball and sliding paraboloid background subtraction algorithms.

imagej image-processing python3 background-subtraction rolling-ball sliding-paraboloid

Updated Oct 12, 2021
Python

imjoy-team / imagej.js

ImageJS--Image analysis in the browser with ImageJ

imagej image-processing

Updated Dec 6, 2021
JavaScript

thorstenwagner / ij-ridgedetection

Detect ridges / lines with imagej

imagej fiji detect-ridges

Updated May 16, 2019
Java

bockp / Edge-Detection-project

Tiny Image in Javascript - Edge Detection Algorithms

javascript webgl benchmark algorithm imagej edge-detection canny-edge-detection sobel edge-detection-algorithms laplace

Updated Mar 5, 2018
JavaScript

imagingbook / imagingbook-public

Image processing software for textbooks by W. Burger & M. Burge

java imagej imagej-plugins digital-image-processing imagingbook burger-burge

Updated Aug 24, 2021
Shell

flika-org / flika

An interactive image processing program for biologists written in Python.

python imagej image-processing neurons fluorescence microscopy calcium biologists astrocytes

Updated May 31, 2021
Python

DylanMuir / ReadImageJROI

Matlab function to import ROIs from ImageJ

imagej imagej2 matlab import roi

Updated Dec 13, 2019
MATLAB

ThermImageJ

gtatters / ThermImageJ

ImageJ functions and macros for working with thermal image files

ffmpeg imagej fiji perl thermal-imaging heat-transfer temperature-reading exiftool imagej-macro fiji-macro

Updated Mar 31, 2021
ImageJ Macro

imagej_macros_and_scripts

MontpellierRessourcesImagerie / imagej_macros_and_scripts

ImageJ macros and scripts written at the imaging facility MRI

imagej fiji imagej-plugins jython image-analysis-workflows imagej-macro bioimage-analysis fiji-macro toolsets imagej-macros imagej-macro-scripts

Updated Jan 6, 2022
ImageJ Macro

morphonets / SNT

The ImageJ framework for semi-automated tracing and analysis of neurons

imagej imagej2 scijava neuroscience neuroanatomy-toolbox

Updated Jan 6, 2022
Java

tferr / Scripts

🔬

🍸 Home of the ImageJ BAR: A collection of Broadly Applicable Routines for ImageJ

ruby python java groovy clojure imagej imagej2 scripts-collection scientific-workflows image-analysis microscopy jython beanshell ijm

Updated Jun 10, 2019
Java

bonej-org / BoneJ2

Plugins for bone image analysis

imagej travis-ci image-processing scientific-computing java-8 image-analysis imagej-plugins maven-multimodule fiji-plugin skeletal-biology

Updated Aug 12, 2021
Java

cgohlke / roifile

Read and write ImageJ ROI format. Forked from https://pypi.org/project/roifile

Updated Jun 6, 2021
Python

nicost / micro-manager

Microscope control and image acquisition integrated with ImageJ.

java imagej instrumentation microscopy

Updated Dec 27, 2021
Java

thorstenwagner / ij-nl-means

Non local means filter for ImageJ

imagej fiji image-denoising denoising-images

Updated Dec 3, 2017
Java

ekatrukha / ZstackDepthColorCode

Z-stack Depth Colorcode ImageJ FIJI plugin

imagej fiji microscopy fiji-plugin colorcode imagej-plugin

Updated Feb 17, 2021
Java

ariel-waisman / LabelsToROIs

A Fiji/ImageJ plugin to generate ROIs from label images, allowing ROI erosion and quantification

computer-vision imagej fiji segmentation image-analysis fiji-plugin cell-segmentation label-images

Updated Sep 11, 2021
Python

ekatrukha / DoM_Utrecht

Detection of Molecules plugin for ImageJ, Utrecht University

java single-molecule imagej imagej-plugins fiji-plugin utrecht-university

Updated Apr 15, 2021
Java

imagingbook-common

imagingbook / imagingbook-common

Common Java library for digital image processing books by Burger & Burge

imagej digital-image-processing imagingbook burger-burge

Updated Jan 6, 2022
Java

ropensci / ijtiff

An R Package for general purpose TIFF file I/O which plays nice with ImageJ

r imagej rstats image-manipulation r-package tiff-files tiff-images peer-reviewed

Updated Jul 3, 2021
R

quantixed / imagej-macros

Macros for ImageJ/FIJI

imagej fiji tiff figure-maker fiji-macro imagej-macros

Updated Oct 28, 2021
ImageJ Macro

ijp-toolkit

ij-plugins / ijp-toolkit

ijp-toolkit general purpose plugins for ImageJ (also known as ij-plugins_toolkit)

scala imagej image-processing image-analysis sbt-imagej ijp-toolkit texture-synthesis

Updated Aug 5, 2021
Java

lukmuk / em-scalebartools

Fiji/ImageJ macros to quickly add a scale bar to an (electron microscopy) image.

imagej fiji electron-microscopy scalebar

Updated Dec 11, 2021
ImageJ Macro

thorstenwagner / ij-blob

ImageJ library to detect and analyse connected components (blobs) in binary images

imagej fiji image-analysis imagej-plugins component-analysis binary-image

Updated Jul 4, 2016
Java

Repository: imagej/imagej
Website: imagej.net
Wikipedia: Wikipedia