Biomedical Imaging Research Unit


Software resources

Using the Colour Deconvolution plugin in ImageJ (04 September 2014)

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Using Colour Deconvolution in the freeware ImageJ
The Colour Deconvolution plugin, developed by Gabriel Landini, is designed to help separate images of histological stains into their component stains, e.g. haematoxylin and eosin. These images can then be segmented and analysed. This is helpful because these stains often cannot be separated through standard channel separation (red, green, blue) procedures. (1.4 MB, PDF)

Creating a macro with the Colour Deconvolution plugin (01 February 2013)

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Creating a Macro for Colour Deconvolution using Regions of Interest
This document explains how to create a macro for deconvolving histological images when the built-in vectors do not adequately separate the images. The macro can then be used for batch processing. (5.6 MB, PDF)

Using Photoshop CS5 for microscope images (14 September 2012)

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Photoshop CS5 Introduction
Brief introduction to the program interface, tools, image enhancement and creating figures (4.0 MB, PDF)

Introduction to ImageJ for Anatomy Surgical Options Students (03 May 2012)

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ImageJ Brief Introduction
Brief introduction to the program interface, use of tools, etc. for medical students (1.2 MB, PDF)

Image analysis basics using ImageJ (03 May 2012)

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Image_Analysis_Basics
Covers the basic tools for image analysis, area measurements, particle analysis & gel analysis. (1.8 MB, PDF)

Introduction to ImageJ (8 September 2009)

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ImageJ Introduction
Brief introduction to the program and use of the tools. (3.1 MB, PDF)

Combining cyan, magenta and yellow images (9 October 2009)

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Cyan_Yellow_Combine
Explains how to apply LookUp Tables (LUTs) and how to combine cyan, magenta and yellow images. (1.6 MB, PDF)

Using and writing macros in ImageJ (2 August 2007)

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Using and Writing Macros in ImageJ.pdf
Introduction to the use of macros and how to create them. (801.0 kB, PDF)

Colocalisation tools in ImageJ (18 July 2007)

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Colocalisation Analysis Tools in ImageJ
Introduction to tools for colocalisation analysis. Also covers briefly experimental aspects such as controls, etc. (1.8 MB, PDF)

Colour analysis tools in ImageJ (11 July 2007)

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Colour Analysis Tools in ImageJ
Introduction to tools for segmentation of colour images (histology stains, DAB, AEC, etc, not fluorescence). (4.1 MB, PDF)

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