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ImageJ for Biologists

02 Dec, 2019 @ 9:30 am 04 Dec, 2019 @ 5:00 pm

imagej course

Details

Start:
02 Dec, 2019 @ 9:30 am
End:
04 Dec, 2019 @ 5:00 pm
Cost:
€170

Modica

Modica, 97015 Italy + Google Map
More details soon…

Outline

Counting and measuring particles like cells and individuals from a population is a time-consuming process which is a necessary step in several research fields. Automatization can increase accuracy and reduce the time spent on such a process. The open-source software ImageJ is a powerful tool for image, images stacks, time-lapse and video analysis. 

This course will serve as an introduction to image analysis workflows, spanning from basic particle counting to custom macro design. After the course, the student will be able to integrate image analysis in his experimental routine.

Themes:

  • Image analysis basics
  • Particle analysis
  • Data import in R
  • Data visualization with ggplot
  • Random forest classification

Calendar:

Day 1:

Intro to ImageJ:

  • Image acquisition tips and tricks
  • Import images in ImageJ
  • Introduction to the available commands
  • Particle analysis
  • Morphological descriptors

Day 2:

ImageJ customization:

  • Macro language and design
  • Available plugins
  • Intro to video analysis
  • Intro to particle tracking

Day 3:

From ImageJ to R:

Notes:

A notebook is required. The installation of ImageJ and R is suggested. 

Basic particle analysis routine in Maple plant stem cross-section.

imagej tutorial

Tracking embolism events in poplar leaf veins using the open-source optical technique.

leaf cavitation exposed


Hyblea Training logoInstructors:

Pierluigi Colangeli, Ph.D.

Silvia Lechthaler, Ph.D.

Co-founders of Hyblea Training

Topics: image analysis, particle analysis, automatization


REGISTRATION DEADLINE: 1 NOV 2019