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Tutorials

    2009-07-10 - FIJI presentation from ELMI2009 ImageJ Tutorial

    Adding new ops

    Align Image by line ROI

    Analyze Stripes

    Annotating Images

    Auto Crop

    Chromatic shift origins measurement and correction

    Colocalization - hardware setup and image acquisition

    Colocalization Analysis

    Color Image Processing

    Cookbook

    Correcting drift in FRAP experiments

    Cover Maker

    DS4H Image Alignment

    Deconvolution

    Detect Information Loss

    Developing ImgLib2

    Developing Plugins for ImageJ 1.x

    Development Lifecycle

    Diadem Challenge Data

    Extended Depth of Field

    Fiji/YouTube Channel

    Fix non-functional ImageJ after Update

    Following an update site

    Generate and exploit Kymographs

    Getting Started

    Getting started with TrackMate

    Git workshop

    Graph Cut

    Hippocampal CA3 Interneuron

    How to apply a common operation to a complete directory

    How to call a plugin with a range of parameters

    How to contribute to an existing plugin or library

    How to make a new tutorial

    How to set up and populate an update site

    How to write custom actions for TrackMate

    How to write your own detection algorithm for TrackMate

    How to write your own edge feature analyzer algorithm for TrackMate

    How to write your own particle-linking algorithm for TrackMate

    How to write your own spot feature analyzer algorithm for TrackMate

    How to write your own track feature analyzer algorithm for TrackMate

    How to write your own viewer for TrackMate

    ImageJ1-ImageJ2 cheat sheet

    Image Intensity Processing

    Image Processing School Pilsen 2009 - Segmentation

    ImgLib1 › iterating through pixel data

    ImgLib2 Examples

    Importing Image Files

    Installing 3rd party plugins

    Linear Distance

    Linear Kuwahara

    Links to tutorials

    Low Light Tracking Tool

    Make Fiji Package

    Mamed

    Manual editing of tracks using TrackMate

    Manual tracking with TrackMate

    Miji

    Moving Least Squares

    Nuclei Watershed Separation

    Particle Analysis

    PhotoBend

    Point Analysis

    Principles

    RATS › Robust Automatic Threshold Selection

    Replace Red with Magenta

    Report a Bug

    Retinex

    SSH public keys

    Save as animated gif

    Saving and Exporting

    Segmentation

    Shortcuts to folders inside Fiji.app

    Simple Neurite Tracer › "Export to SWC" Tutorial

    Simple Neurite Tracer › Sholl analysis

    Skeleton analysis video tutorial

    Spatial Calibration

    Spirals

    Stack-slice Manipulations

    Statistical Region Merging

    Stitch and Align a sequence of grid images Tutorial

    Stochastic Denoise

    T-functions

    Test of PNG-screenshot tutorial

    TopoJ

    TrackMate

    TrackScheme

    Trainable Segmentation Plugin Implementation

    Trainable Segmentation Plugin (deprecated)

    Trainable Weka Segmentation - How to compare classifiers

    Trainable Weka Segmentation - How to install new classifiers

    TrakEM2 add more sections/layers tutorial

    TrakEM2 align sections tutorial

    TrakEM2 basics tutorial

    TrakEM2 measurements tutorial

    TrakEM2 saving project tutorial

    TrakEM2 segmentation modes tutorial

    TrakEM2 semi-automatic segmentation tutorial

    TrakEM2 tutorials

    Using ImgLib1 in a plugin

    Using the Command Launcher

    Using the Script Editor

    Writing plugins

    Z-functions