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mainpages:courses:201911konstanz [2019/10/11 03:56] (current)
kota created
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 +====== ImageJ workshop: Stuttgart Nov, 2019 ======
  
 +{{:​mainpages:​courses:​konstanz:​bic.png?​150 |}}{{:​mainpages:​courses:​konstanz:​bw.png?​200 |}}{{:​mainpages:​courses:​konstanz:​unikonstanz.png?​150 |}}
 +===== Date =====
 +
 +Nov 11th and 12th, 2019
 +
 +===== Introduction =====
 +
 +The Bioimaging Center of the University of Konstanz offers workshops in image analysis based on the open-source software ImageJ, as a part of a new program of German Bioimaging "​Rent-a-Trainer"​. ​
 +
 +This **two-day ImageJ macro workshop** teaches the ImageJ macro programming for biological / biomedical image analysis. The goal of the workshop is that participants acquire basic programming techniques for analyzing image data. 
 +
 +Participation is most fruitful for learners who are conducting biological or medical research and are already using (light) microscopy for quantification purposes, and also has some experiences in using ImageJ. ​
 +
 +Participants should bring their own laptops. Instructions on how to install ImageJ is explained below.
 +
 +===== Location =====
 +
 +The workshop will take place at the University of Konstanz. The schedule is shown in the table below.
 +
 +===== Workshop trainer =====
 +
 +Kota Miura (kotapub@gmail.com),​ Freelance Bioimage Analyst & Vice Chair, NEUBAIS (The Network of European Bioimage Analysts)
 +
 +===== Preparation before coming =====
 +
 +1. Please download Fiji from the following URL. 
 +  * https://​imagej.net/​Fiji/​Downloads
 +
 +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"​.  ​
 +
 +
 +===== Schedule =====
 +
 +Tentative! ​
 +
 +==== Nov 11th ====
 +
 +  * 10:30 -12:​00 ​
 +     * Setting up
 +     * using script editor in Fiji
 +     * Hello World
 +  * 13:00 - 17:00 
 +     * Looping
 +     * Conditions
 +     * Arrays ​
 +     * A bit more advanced techniques
 +     * assignments/​answers
 +
 +=== Nov 12th ===
 +
 +  * 10:30 - 12:00 
 +     * string operations
 +     * File system IO
 +     * assignments/​answers
 +  * 13:00 - 17:00 
 +     * understanding colocalization analysis with programming ​
 +     * assignments/​answers
 +
 +From time to time, with coffee breaks in between for both days.
 +This will be not the exact schedule. It will be adjusted depending on the progress. ​
 +
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 +*/
mainpages/courses/201911konstanz.txt ยท Last modified: 2019/10/11 03:56 by kota