Aim: What is ImageJ and Why do we use it? Day 1. Brief Background Released in 1997 by Wayne Rasband Developed at the National Institutes of Health Runs.

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Presentation transcript:

Aim: What is ImageJ and Why do we use it? Day 1

Brief Background Released in 1997 by Wayne Rasband Developed at the National Institutes of Health Runs on Windows, Mac, and Linux Macros enable personalization and allows for focus on specific tasks

Background FREE!! Runs on Java with no license required – Predecessors such as Image SXM and NIH Image were “closed source” …requires fee/license More than 1700 users on the mailing list – Countless others use for independent research

Why do we need to learn about it? Increase technical computer skills More accurate than hand calculations or guess-timations Allows you to manipulate data

Ok, so what is it? Long answer: a public domain, Java- based image processing program Short answer: pixel analysis

How to use ImageJ (The basics) Go to My Website (Mrs. Farley) through the Elmont web page Right-click to open ImageJ in a new tab – If you are working at home, download the program so you can avoid step 1. If you have images saved, use those. – If not, right click sample files and save them to desktop or another folder

How to set Scales File – Open – Select image Go back to ImageJ toolbar Straight Line Selections Click to start line on scale Click to stop line on scale

How to set scales Analyze Set Scale Change known distance to units on scale in picture Change unit of length to units provided (km,m,mm,um, etc.) Click global Click OK

How to measure length Use straight line tool Draw line on selected area Analyze Measure Scroll to the right of data table Find length; record

How to measure length with a non- straight line Segmented Line Right click the straight line tool Select segmented line Click repeatedly to match line shape to original image Analyze is the same Free-Hand Right click the straight line tool Select freehand Click and drag Analyze is the same **NOT RECOMMENDED**

Assignment Junior High Researchers – Analyze images B, C, and D for distance of one side and total perimeter Senior High Researchers – Analyze images A-E for “height”, “Width” and total perimeter data to your teachers today (Mr. Spinnato or Mrs. Flannory)