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Quantitative Image Analysis

Workshop Overview

This workshop will provide an introduction to the quantitative analysis of scientific images. It is intended for those who will be working with image data from biological experiments. We will start with a lecture-style overview of the concepts and principals of image analysis, followed by hands-on demonstrations and exercises.

Learning Objectives

By the end of the workshop participants should:

  • Understand the basic features of images (pixels, noise, etc.)
  • Know about the main features and capabilities of the Fiji / ImageJ software
  • Know the steps required for image manipulation and processing
  • Be able to perform some of the techniques for image analysis and segmentation
  • Be able to produce publication-quality figures of scientific images

Course Prerequisites

There are no prerequisites for this course other than to have the Fiji software installed on your laptop before class. If you have an image that you are working on or want to practice analyzing, feel free to bring this to class. Otherwise, we will provide a sample image for you to work with during class.


This course uses Fiji, which includes the ImageJ software along with useful plugins. You must have this installed on your laptop before class.

Download and Install Fiji


Torsten Wittmann, PhD is a Professor in the Department of Cell & Tissue Biology.

Todd Nystul, PhD is an Associate Professor in the Department of Anatomy.

For UCSF Faculty:

Additional seats reserved for UCSF Faculty. Register at this link

Thursday, February 7, 2019
2:00pm - 5:00pm
  Bioinformatics and Statistics     Data Science Initiative     Statistics Software  
Registration has closed.

Event Organizer

Profile photo of Karla Lindquist
Karla Lindquist