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EMBL BioImage Data Analysis

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Timeline of @cmci_

cmci_ avatar

RT @kjaMartens: We created a very simple method to get high precision and density in spectrally-resolved single-molecule localization micro…
About 1 day, 14 hours ago by: Kota Miura (@cmci_)

cmci_ avatar

RT @random_walker: There’s a reproducibility crisis brewing in almost every scientific field that has adopted machine learning. On July 28,…
About 2 days, 4 hours ago by: Kota Miura (@cmci_)

cmci_ avatar

@AthaleLab @IISERPune @serbonline @DBTIndia @IFCPAR @OfficialSICI @boschindia Congrats Prof. Chait!
About 5 days, 16 hours ago by: Kota Miura (@cmci_)

cmci_ avatar

RT @albertcardona: Video of my #I2K2022 entry-level scripting tutorial for #ImgLib2 using the @FijiSc Script Editor: https://t.co/eastROJm0
About 1 week ago by: Kota Miura (@cmci_)

cmci_ avatar

RT @blg_journal: Biological Imaging has two current calls for papers, please share with your networks: Spatial Analysis in Biological Imag…
About 1 week, 1 day ago by: Kota Miura (@cmci_)

cmci_ avatar

This reference is also interesting. What Is the Region Occupied by a Set of Points? https://t.co/oDajYd4YCt
About 1 week, 1 day 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 12:46 (external edit)