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EMBL BioImage Data Analysis

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Timeline of @cmci_

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RT @_pm_lab: Unbiased quantitative phenotypic #BioImageAnalysis of #3D #microscopy images in #HighContentScreening is a fundamental challen…
About 7 hours, 37 mins ago by: Kota Miura (@cmci_)

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RT @joachimgoedhart: Our recent preprint has several step-by-step guides that explain how timelapse imaging data can be processed and visua…
About 5 days, 6 hours ago by: Kota Miura (@cmci_)

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RT @PLOSCompBiol: 3D #BioImageAnalysis for #HighContentScreening should be easy. Using data driven voxel-based features & #MachineLearning…
About 6 days, 23 hours ago by: Kota Miura (@cmci_)

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RT @ArizonaImaging: ImageJ/FIJI ASU TEC Talk, Thursday March 18. Learn about techniques at the beginner and advanced in a two-part workshop…
About 6 days, 23 hours ago by: Kota Miura (@cmci_)

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RT @jan_eglinger: Batch processing, image and data analysis with visual workflows using #KNIME - join @stelfrich and myself this Thursday f…
About 1 week ago by: Kota Miura (@cmci_)

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RT @DrAnneCarpenter: Postdoc opening in Boston! Your expertise in machine learning, statistics and/or data science can be splendidly appli…
About 1 week, 2 days 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 12:46 (external edit)