Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

Imaging Biological Samples with Optical Microscopy

Imaging Biological Samples with Optical Microscopy

Optical microscopy uses optic principles to provide detailed images of samples. Antonie van Leeuwenhoek designed the first compound optical microscope in the 17th century to visualize blood cells, bacteria, and yeast cells. In 1830, Joseph Jackson Lister created an essentially modern light microscope. The 20th century saw the development of microscopes with enhanced magnification and resolution.
In optical microscopy, the specimen to be viewed is placed on a glass slide and clipped on the stage...

GIS Software, Hardware, and Sources of GIS Data

GIS Software, Hardware, and Sources of GIS Data

A Geographic Information System (GIS) combines specialized software and hardware to effectively manage, analyze, and present spatial and related data. GIS software includes critical functionalities such as a user interface for easy navigation, database management tools for handling spatial and attribute data, and data retrieval features for efficient access. Analytical tools transform raw data into insights, while display functions produce maps and reports in various formats for effective...

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by

Same author

SAMJ: fast image annotation on ImageJ/Fiji via segment anything model.

Nature communications·2026

Same author

Search, organize, aggregate and share image data with BioFile Finder (BFF).

Nature methods·2026

Same author

<math><mrow><mi>Micro</mi> <mi>S</mi> <mi>plit</mi></mrow></math> : semantic unmixing of fluorescent microscopy data.

Nature methods·2026

Same author

EpiCure (Epithelial Curation): a versatile and handy tool for curation of epithelial segmentation.

bioRxiv : the preprint server for biology·2026

Same author

FLIM quality metric visualization as a means to validate consistency across large-area non-homogeneous FLIM datasets.

Methods and applications in fluorescence·2026

Same author

Engineering "physically optimized" T cells for increased sampling of complex tumor microenvironments.

bioRxiv : the preprint server for biology·2026

Same journal

Macromolecular crowding inhibits degradation of alpha-synuclein amyloid fibrils induced by cathepsins and MMP9.

Protein science : a publication of the Protein Society·2026

Same journal

Sequence-encoded differences in the conformational ensembles of CITED transcriptional activation domains impact coactivator binding.

Protein science : a publication of the Protein Society·2026

Same journal

The phospholipid biosynthesis enzyme PlsB contains three distinct domains for membrane association, lysophosphatidic acid synthesis, and dimerization.

Protein science : a publication of the Protein Society·2026

Same journal

Structural basis of ligand selectivity in FAD/NAD(P)H-dependent dehydrogenases: insights from trypanothione reductase and type II NADH dehydrogenase.

Protein science : a publication of the Protein Society·2026

Same journal

Achieving protease substrate-specific inhibition by mAb dual functional selections.

Protein science : a publication of the Protein Society·2026

Same journal

How important are quantum mechanical effects in controlling biological functions: Enzymes, electron transfer and bird navigation.

Protein science : a publication of the Protein Society·2026

See all related articles

Search research articles

Related Experiment Video

Updated: Dec 1, 2025

Measuring the Shape and Size of Activated Sludge Particles Immobilized in Agar with an Open Source Software Pipeline

Measuring the Shape and Size of Activated Sludge Particles Immobilized in Agar with an Open Source Software Pipeline

Published on: January 30, 2019

The ImageJ ecosystem: Open-source software for image visualization, processing, and analysis.

Alexandra B Schroeder^1,2,3, Ellen T A Dobson¹, Curtis T Rueden¹

¹Laboratory for Optical and Computational Instrumentation, Center for Quantitative Cell Imaging, University of Wisconsin at Madison, Madison, Wisconsin, USA.

Protein Science : a Publication of the Protein Society

|November 9, 2020

Summary

This summary is machine-generated.

ImageJ, an open-source image analysis platform, has evolved with new plugins and tools to handle complex biological imaging data. Recent updates, including deep learning capabilities and ImageJ2 enhancements, improve multidimensional image processing and interoperability.

Keywords:

Fiji ImageJ image analysis imaging microscopy open source software

More Related Videos

LeafJ: An ImageJ Plugin for Semi-automated Leaf Shape Measurement

LeafJ: An ImageJ Plugin for Semi-automated Leaf Shape Measurement

Published on: January 21, 2013

Integrative Toolkit to Analyze Cellular Signals: Forces, Motion, Morphology, and Fluorescence

Integrative Toolkit to Analyze Cellular Signals: Forces, Motion, Morphology, and Fluorescence

Published on: March 5, 2022

Related Experiment Videos

Last Updated: Dec 1, 2025

Measuring the Shape and Size of Activated Sludge Particles Immobilized in Agar with an Open Source Software Pipeline

Measuring the Shape and Size of Activated Sludge Particles Immobilized in Agar with an Open Source Software Pipeline

Published on: January 30, 2019

LeafJ: An ImageJ Plugin for Semi-automated Leaf Shape Measurement

LeafJ: An ImageJ Plugin for Semi-automated Leaf Shape Measurement

Published on: January 21, 2013

Integrative Toolkit to Analyze Cellular Signals: Forces, Motion, Morphology, and Fluorescence

Integrative Toolkit to Analyze Cellular Signals: Forces, Motion, Morphology, and Fluorescence

Published on: March 5, 2022

Area of Science:

Bioimage analysis
Computational biology
Scientific image processing

Background:

Biologists use software for imaging data interpretation.
Increasingly complex imaging techniques generate large, multidimensional datasets.
ImageJ is a widely adopted open-source platform for image analysis.

Purpose of the Study:

To review the ImageJ ecosystem's core features.
To highlight ImageJ's adaptations to advancements in imaging technology.
To discuss the impact of ImageJ2 on image processing and interoperability.

Main Methods:

Review of ImageJ ecosystem components and plugins.
Analysis of recent adaptations to address user needs in image analysis.
Examination of ImageJ2's architectural changes and contributions.

Main Results:

ImageJ has adapted to complex imaging data with new plugins for visualization, segmentation, and tracking.
Deep learning capabilities are being integrated into ImageJ, reflecting a trend towards AI in bioimage analysis.
ImageJ2 has enhanced multidimensional image processing and interoperability within the ImageJ ecosystem.

Conclusions:

The ImageJ ecosystem, driven by its user and developer communities, continues to evolve to meet the demands of modern biological imaging.
Recent developments, particularly those facilitated by ImageJ2, have significantly improved ImageJ's ability to handle large, complex datasets and integrate advanced analytical techniques like deep learning.
ImageJ remains a vital tool for biological research, adapting to technological advancements and fostering community-driven innovation in image analysis.