Tutorials

Image J/ Fiji


* How to re-align 3 or 4 fluorescence channels? (Source: G. Landini, University of Birmingham, UK)	*Align 4 plugin* *Align RGB* Plugins to download HERE
* Manuel d'analyse d'images avec le logiciel ImageJ (French) (source: Sophie Allart and Astrid Canivet, Inserm, *TRI*-Genotoul imagerie, France)	*Manuel ImageJ*
* Analyzing Fluorescence microscopy images with ImageJ (source: Peter Bankhead, Queen's Univ. Belfast)	*Analyzing Fluo*
* Scientific Image Analysis: the world Image J (French) (source: Daniel Sage, EPFL-STI, BIG, Lausanne, Switzerland)	*ImageJ_Introduction.pdf*
* How to calibrate the pixel size in microns and how to add a scale bar to my image?	*Calibration & Scale Bar*
* How to determine the intensity profil of three different channels?	*Intensity Profil*
* How to count cell nuclei on a confocal image?	*Nuclei Counting*
* Image processing and analysis: introduction (source: Montpellier RIO imaging, France)	*Basics.pdf*
* Opening multi-format files with the LOCI Bio-Format plugin *(source: Chicago Univ., USA)*	*LOCI.pdf*
* Merging colors beyond RGB *(source: Chicago Univ., USA)*	*Merge.pdf*
* Making montages *(source: Chicago Univ., USA)*	*Montage.pdf*
* Basic cell counting *(source: Chicago Univ., USA)*	*CellCounting.pdf*
* Counting objects by template matching *(source: Chicago Univ., USA)*	*ObjectCounting.pdf*
* Basic image quantification from images *(source: Chicago Univ., USA)*	*Quantification.pdf*
* Manual tracking *(source: Curie Institute, Paris, France)*	*Tracking.pdf*
* Quantification of gel images	*GelAnalysis.pdf*
* Colour analysis tools *(Auckland univ., New Zealand)*	*ColourAnalysis.pdf*
* How to use the trainable Weka Segmentation plugin of Fiji to segment color images into three different types of regions (machine learning)?	*https://www.youtube.com/watch?v=8yfBHiGufFE* *http://imagej.net/Trainable_Weka_Segmentation*
* How to work with a large image acquired with the VS120 Olympus? *(source: O.Burri,R. Guiet, BIOP, EPFL, Lausanne, Switzerland)*	*VSI Reader Actionbar* *Tutorial_Installation*
* How to analyze a colocalization? *(source: F. Cordelières, S. Bolte, Paris, France)*	*JACoP.pdf* *Wiki doc*
* How to track microscopes' performances ? *(source: F. Cordelières/ Paris C. Matthews/ Marseille, France)*	*http://imagejdocu.tudor.lu/* *doku.php?id=plugin:analysis:metroloj:start* *metroloj.pdf*
*** How to detect filopodia ? (source: Guillaume Jacquemet and Alexandre Carisey)**	FiloQuant.pdf