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EMBL BioImage Data Analysis

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Timeline of @cmci_

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Bioimage Analysis Lunch Heidelberg https://t.co/VIFKMGZ7K3
About 1 hour, 4 mins ago by: Kota Miura (@cmci_)

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RT @albertcardona: @cmci_ @LauLauThom In 2004 I wrote the "CLI", a command line interpreter for the ImageJ macro language. Its UI is the fo…
About 23 hours, 20 mins ago by: Kota Miura (@cmci_)

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Another biological world under deep earth https://t.co/J38asi2M48
About 1 day, 14 hours ago by: Kota Miura (@cmci_)

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RT @CDBMicroCore: Great summary of different visualization strategies for time-lapse data -- I need to incorporate this into my quantitativ…
About 1 day, 16 hours ago by: Kota Miura (@cmci_)

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@albertcardona @LauLauThom wow, that will be very useful. By the way, I found a thread today related to interpreter… https://t.co/IBlmlXg4tZ
About 1 day, 19 hours ago by: Kota Miura (@cmci_)

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RT @albertcardona: @cmci_ @LauLauThom Cool! By the way, I've augmented the Script Editor with an "incremental" evaluation mode: via a comma…
About 1 day, 22 hours ago by: Kota Miura (@cmci_)
documents:121019htm

2012 EMBO High-throughput Microscopy Practical Course

Dates: 2012.10.15-20 Place: ATC, EMBL Heidelberg

    1. With Andrea Boni @ Ellenberg Lab
    2. Abstract: The students will learn basics of image analysis of time lapse data. We will first go through preprocessing steps: filtering, noise reduction and background subtraction. We then move on to image thresholding and segmentation techniques, which allow us to objectively define region of interest (ROI) where the temporal dynamics of signal intensity are measured. Automation is an esseitial aspect in highthroughput imaging. In this session, students will be guided to learn how to automate the imaging processing steps that we went through manually. Scripting is necessary for automation. For this reason, a brief introduction to code ImageJ macro will be provided and students will learn to write a short macro that processes raw data and outputs results automatically.
  1. Demo script (written in Jython)
  2. Student ImageJ macro: example
documents/121019htm.txt · Last modified: 2016/05/24 05:46 (external edit)