Page history Edit this page How do I edit this website?

Plugin Grid

Analysis

Binary

Colocalization

Deconvolution

Filtering

Registration

Scripting

Segmentation

Tracking

Tutorials

Align Image by line ROI Analyze Stripes Auto Crop
Cover Maker DS4H Image Alignment Extended Depth of Field
Graph Cut Importing Image Files Linear Kuwahara
Low Light Tracking Tool Make Fiji Package Example mamut.properties file
Miji Moving Least Squares Advanced mode(MTrack)
Read more on microtubule polarity and (+) end vs. (-) end tracking Read more about MSER parameters Read more about Preprocessing
Read more about the RANSAC parameters Read more on RANSAC models MSER as the segmentation method
Watershedding and Hough transform parameters Watershed followed by MSER PhotoBend
Point Analysis RATS › Robust Automatic Threshold Selection Replace Red with Magenta
Retinex Simple Neurite Tracer › Basic Instructions Simple Neurite Tracer › "Export to SWC" Tutorial
Simple Neurite Tracer › Preprocessing Data for Better Results Simple Neurite Tracer › Selecting paths Simple Neurite Tracer › Sholl analysis
Simple Neurite Tracer › Step-By-Step Instructions Testing Procedure for Simple Neurite Tracer Simple Neurite Tracer › Using MIP Overlays
SNT › Manual SNT › Modeling SNT › Scripting
SNT › Step-By-Step Instructions Spirals Statistical Region Merging
Stochastic Denoise TopoJ Analyzing TrackMate results with MATLAB
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 Getting started with TrackMate TrackMate
Manual editing of tracks using TrackMate Manual tracking with TrackMate TrackScheme
Trainable Segmentation Plugin Implementation Trainable Segmentation Plugin (deprecated) 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 Trainable Weka Segmentation - How to compare classifiers Trainable Weka Segmentation - How to install new classifiers

Visualization