User Tools

Site Tools


Sidebar

Top
Seminar
Courses
Textbooks
Documents
Downloads (-2016)
Downloads (2016-)
Weblog
RSS aggregates
Discussions
Archives


EMBL BioImage Data Analysis

EuBIAS

NEUBIAS

—- Contact
CMCI Alumni
ALMF
EMBL Heidelberg
EMBL Intranet


Popularity Ranking


Timeline of @cmci_

cmci_ avatar

RT @SimonFlyvbjerg: Image analysis job opening in Wonderful Copenhagen https://t.co/fkjOmdgPB5
About 11 hours ago by: Kota Miura (@cmci_)

cmci_ avatar

RT @JekelyLab: Interested in connectomics? Join us in stunning Exeter! Postdoc opening to work on Platynereis serial EM data @UoE_Jobs @Uni…
About 11 hours, 1 min ago by: Kota Miura (@cmci_)

cmci_ avatar

I like this kind of analysis - protein and organelle distributions
About 11 hours, 3 mins ago by: Kota Miura (@cmci_)

cmci_ avatar

Measuring radial intensity profile using custom IJ macro. Fig4b. https://t.co/cW0piWvTqq https://t.co/jz76Qv2Brp
About 11 hours, 4 mins ago by: Kota Miura (@cmci_)

cmci_ avatar

RT @SfPRocur: One hashtag to follow for this kind of #sciart is #cellfie - different kinds of cells usually captured in a microscope. Look…
About 22 hours, 35 mins ago by: Kota Miura (@cmci_)

cmci_ avatar

RT @herrsaalfeld: Oh---look what just came out: https://t.co/vXrMIAx5we @funkstille @srinituraga @cremi_challenge
About 23 hours, 54 mins 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)