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<!doctype html>
<html>
<head>
<meta charset="utf-8">
<meta http-equiv="X-UA-Compatible" content="chrome=1">
<title>ICR Introduction to Image Analysis</title>
<link rel="stylesheet" href="stylesheets/styles.css">
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<meta name="viewport" content="width=device-width">
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<body>
<div class="wrapper">
<header>
<a href="https://icr-analysis.github.io/"><img src="https://rawcdn.githack.com/adamltyson/public-data/master/ImageAnalysisCourse_18-10-17/ICR_logo.png" alt="ICR logo" style="width:400px"></a>
<br>
<br>
<h2>Course Materials</h2>
<p> <a target="_blank" href="https://rawcdn.githack.com/adamltyson/public-data/master/ImageAnalysisCourse_18-10-17/Intro_ImageAnalysis_October2018.pdf">Course slides (.pdf)</a><br>
<a target="_blank" href="https://rawcdn.githack.com/adamltyson/public-data/master/ImageAnalysisCourse_18-10-17/Intro_ImageAnalysis_October2018.pptx">Course slides (.pptx)</a></p>
<p> <a target="_blank" href="https://rawcdn.githack.com/adamltyson/public-data/master/ImageAnalysisCourse_18-10-17/SampleImages-18-04-17.zip">Sample images (.zip)</a></p>
<p> <a href="https://downloads.imagej.net/fiji/latest/fiji-macosx.dmg">FIJI download (OSX)</a> <br>
<a href="https://downloads.imagej.net/fiji/latest/fiji-win64.zip">FIJI download (Windows)</a> <br>
<a href="https://downloads.imagej.net/fiji/latest/fiji-linux64.zip">FIJI download (Linux)</a> </p>
<p> <a href="http://bigwww.epfl.ch/deconvolution/deconvolutionlab2/DeconvolutionLab_2.jar">Deconvolution toolbox</a> </p>
</header>
<section>
<h1>Introduction to Image Analysis</h1><br>
<h2>Details</h2>
<p> October 17<sup>th</sup> - 10am-3pm</p>
<p> Training Room, Chester Beatty Labs, 237 Fulham Road.</p>
<h2>Summary</h2>
<p>Targeted at those new to image analysis. No experience whatsoever is required.</p>
<p> Applicable to any microscopy method in use at the ICR.
<p>The course will cover some of the fundamentals of image analysis, using examples in the popular open-source software - ImageJ.</p>
<p>The focus will be on general image analysis principles which can be applied in any software package. Many of the example images will be from microscopy, but the principles are applicable to any imaging modality.</p>
<h2>Aims</h2>
<ul style="list-style-type:circle">
<li>Allow those new to microscopy to feel comfortable carrying out basic image analysis independently.</li>
<li>To provide a starting point for the more advanced image analysis methods that are becoming necessary in many areas of biomedical science.</li>
</ul>
<h2>Contents</h2>
<ul style="list-style-type:circle">
<li>ImageJ/FIJI</li>
<li>Histograms, thresholding & segmentation</li>
<li>Smoothing & background subtraction</li>
<li>Morphological operators (erosion, dilation, opening, closing)</li>
<li>Watershed</li>
<li>Gradients & edge detection</li>
<li>Boolean algebra (AND, NOT, OR, XOR)</li>
<li>Deconvolution</li>
<li>Advanced segmentation using machine learning</li>
<li>Object measurement</li>
<li>ImageJ automation & macros</li>
<li>Experiment planning</li>
<li> Analysis as a method (e.g. super resolution microscopy)</li>
</ul>
<p></p>
<h2>Further information</h2>
<p>More information is available on the main <a href="https://icr-analysis.github.io/">ICR image analysis page</a></p>
</section>
<footer>
<p>This site is maintained by <a href="http://github.com/adamltyson">Adam Tyson</a><br>
<small> Advanced Image Analyst and Microscopist</small><br>
<small> Institute of Cancer Research</small></p><br>
<p><a href="https://icr-analysis.github.io/">ICR Image Analysis</a><br>
<p><small><small>Hosted on GitHub Pages — Theme by <a href="https://github.com/orderedlist">orderedlist</a></small></small></p>
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