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Related Experiment Video

Updated: Jul 21, 2025

Quantifying Microglia Morphology from Photomicrographs of Immunohistochemistry Prepared Tissue Using ImageJ

Quantifying Microglia Morphology from Photomicrographs of Immunohistochemistry Prepared Tissue Using ImageJ

Published on: June 5, 2018

Basic Image Analysis and Manipulation in ImageJ/Fiji.

Fabio Stossi¹, Pankaj K Singh²

¹Baylor College of Medicine, Houston, Texas.

Current Protocols

|July 27, 2023

Summary

This summary is machine-generated.

This protocol details using ImageJ/Fiji for microscopy image analysis, covering software setup, data import, and object segmentation for extracting quantitative data from fluorescence images.

Keywords:

ImageJ/Fiji image analysis microscopy object identification

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Counting Proteins in Single Cells with Addressable Droplet Microarrays

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Published on: July 6, 2018

Area of Science:

Biophysics
Cell Biology
Image Analysis

Background:

Microscopy images contain valuable quantitative data.
Automated analysis pipelines are crucial for efficient data extraction.
Open-source software offers accessible solutions for image analysis.

Purpose of the Study:

To provide a protocol for basic microscopy image analysis using ImageJ/Fiji.
To outline steps for software installation, data import, and processing.
To demonstrate object segmentation techniques for fluorescence microscopy data.

Main Methods:

Utilizing the open-source software ImageJ/Fiji.
Implementing image processing functions and analytical tools.
Performing step-by-step segmentation of objects, such as nuclei, in fluorescence images.

Main Results:

A comprehensive protocol for ImageJ/Fiji software.
Demonstrated image analysis techniques including segmentation.
Successful extraction of quantitative information from microscopy images.

Conclusions:

ImageJ/Fiji is a powerful tool for quantitative microscopy image analysis.
The outlined protocol facilitates efficient analysis of microscopy data.
Segmentation routines are key for extracting object-specific information from images.