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EMBL BioImage Data Analysis

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Timeline of @cmci_

cmci_ avatar

RT @albertcardona: @cmci_ @LauLauThom In 2004 I wrote the "CLI", a command line interpreter for the ImageJ macro language. Its UI is the fo…
About 21 hours, 53 mins ago by: Kota Miura (@cmci_)

cmci_ avatar

Another biological world under deep earth https://t.co/J38asi2M48
About 1 day, 12 hours ago by: Kota Miura (@cmci_)

cmci_ avatar

RT @CDBMicroCore: Great summary of different visualization strategies for time-lapse data -- I need to incorporate this into my quantitativ…
About 1 day, 14 hours ago by: Kota Miura (@cmci_)

cmci_ avatar

@albertcardona @LauLauThom wow, that will be very useful. By the way, I found a thread today related to interpreter… https://t.co/IBlmlXg4tZ
About 1 day, 18 hours ago by: Kota Miura (@cmci_)

cmci_ avatar

RT @albertcardona: @cmci_ @LauLauThom Cool! By the way, I've augmented the Script Editor with an "incremental" evaluation mode: via a comma…
About 1 day, 21 hours ago by: Kota Miura (@cmci_)

cmci_ avatar

@LauLauThom">LauLauThom thanks @LauLauThom">LauLauThom !
About 2 days, 8 hours ago by: Kota Miura (@cmci_)
mainpages:linksvideo

Video Links

ImageJ Tutorials

ImageJ installation in Windows (2 min 30 sec)

Tutorial 01 Installing and Basics of ImageJ (46 min)

ImageJ tutorial (71 min)

Optimizing epifluorescence images (7min 40sec)

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)

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

mainpages/linksvideo.txt · Last modified: 2016/05/24 05:46 (external edit)