Table of Contents

Video Links

ImageJ Tutorials

ImageJ installation in Windows (2 min 30 sec)

QvN82ZB4rGA?.swf

Tutorial 01 Installing and Basics of ImageJ (46 min)

_zgvo6GBdX8?.swf

ImageJ tutorial (71 min)

KoqpCsha-UU?.swf

Optimizing epifluorescence images (7min 40sec)

tZaIXM0NzIY?.swf

Particle Counting (7 min)

  1. Showing how to use [Analyze > Analyze Prticles…]

js9ECPuoOwA?.swf

Cell Area Measurement

- Segment cells using automatic thresholding, select cells using “magic wand” tool, store ROIs in roi manager.

WxTu2fn7QxY?.swf

Measure Intensity Changes over Time

  1. This tutorial uses MBF package so the menu structure is different from the bare ImageJ. You could do the same with legacy ImageJ by [Image > Stacks > Plot Z-axis Profile].

Gv7sJ7L2rRY?.swf

Automatic Nucleus Counting (ITCN Plugin)

  1. Uses ITCN (Image-based Tool for Counting Nuclei)

PqHFsmS1_JY?.swf

Track and analyze Brownian Motions (MTrack2 plugin)

  1. Uses plugin “MTrack2” by Nico, and Excel to analyze tracks.

MDIVDAIkdME?.swf

Visualizing 3D (3Dviewer plugin)

Videos showing how to use 3D viewer, a plugin written by Benjamin Schmid. If you install Fiji, this plugin comes along with the installation.

  1. part 1

cD3Hc3NYkaU?.swf

  1. part 2

GqG_RcK3kYg?.swf