User Tools

Site Tools


Sidebar

Top
Seminar
Courses -2016
Courses 2018-
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 @EricTopol: The world #bigdata deluge, now ~ 50 zettabytes, will eventually exceed yottabytes. So we need to name octillion --30 0's--or…
About 1 week, 1 day ago by: Kota Miura (@cmci_)

cmci_ avatar

RT @haesleinhuepf: Thanks @gomez_mariscal for contributing to our #NEUBIAS satellite meeting! Looking forward to seed #DeepImageJ in action…
About 1 week, 3 days ago by: Kota Miura (@cmci_)

cmci_ avatar

RT @EMBLEvents: #BioimageAnalysis is a keystone of biological research. Due to the complexity of data, it's likely that #ImageAnalysis algo…
About 1 week, 3 days ago by: Kota Miura (@cmci_)

cmci_ avatar

RT @gomez_mariscal: Excited about introducing #deepImageJ during the #NEUBIASSatelliteMeeting https://t.co/6jR3iDvK8s @NEUBIAS_COST @COM
About 1 week, 4 days ago by: Kota Miura (@cmci_)

cmci_ avatar

@fab_cordelieres @NEUBIAS_COST @BIC_Bordeaux :)
About 1 week, 4 days ago by: Kota Miura (@cmci_)

cmci_ avatar

@haesleinhuepf @TalleyJLambert @Ulrike_Boehm "The intensity of this image sequence..."
About 1 week, 4 days ago by: Kota Miura (@cmci_)
mainpages:courses:202001stuttgart

Bioimage Analysis Basics using ImageJ @Stuttgart

Date

Jan 21th (T), 22th (W) & 23th (T) 2020

Introduction

This three-day introductory workshop teaches the basics of digital image processing and analysis for biological / biomedical studies. The goal of the workshop is that participants acquire basic knowledge and technique for measurements using image data.

Participation is most fruitful for learners who are conducting biological or medical research and are already using or are planning to use (light) microscopy for quantification purposes.

Participants should bring their own laptops. Please contact me in case this is not possible for you. Instructions on how to properly install and configure ImageJ will be provided before the workshop.

Location

The Bin-BW ImageJ workshop will take place at (TBA).

A detailed agenda is listed in the table below.

Workshop trainer

Kota Miura (kotapub@gmail.com), Freelance Bioimage Analyst & Vice Chair, NEUBAIS (The Network of European Bioimage Analysts)

Learning Resources

Preparation before coming

1. Please download Fiji from the following URL.

2. Start Fiji, then in the menu [Help > Update…]

  • A window “ImageJ updater” opens. In that window, click the button “Manage update sites” at the bottom-left.
  • Another window called “Manage Update Sites” opens. From the list of update sites, tick “CMCI-EMBL”.
  • Close the “Manage update sites” window by clicking the button “close”.
  • In the “ImageJ updater” window, click the button “apply changes” at the bottom. It takes a while to download additional files. When completed, you will be asked to restart Fiji - so quit Fiji, and relaunch Fiji. Check the menu and there should be a new menu item “EMBL”.
  • More plugins to be installed will be announced later (using the update sites function, like explained above).

Schedule

The schedule below may change depending on the progress, but the order of topics will mostly be kept as it is listed.

mainpages/courses/202001stuttgart.txt · Last modified: 2019/12/09 05:32 by kota