Stars
A first intoduction to scripting in Fiji using the ImageJ Macro language.
Imagej toolset to ease hyperstacks visualization and handling
An ImageJ script to align and stitch three-dimensional tiles and quickly explore terabyte-sized microscopy datasets
Materials for the "ImageJ/Fiji Level 2: Automation and batch processing using macros" course taught at the Wolfson Bioimaging Facility, University of Bristol.
#ZVQ - Zebrafish Vascular Quantification - https://doi.org/10.1242/dev.199720
Script that registers Histology slices to volumetric image data
Some of my training materials
Analysis and characterisation of cells within the gut wall using deep learning models. The current focus is on studying enteric neurons and enteric glia.
Published Macros for image analysis & utilities for scalebars (ICH microscopes) & automating standard tasks. All are covered under an MIT License, so can be freely used and distributed.
A suite of ImageJ and Micro-Manager scripts to perform intelligent imaging
"ça y est j'ai une idée! non deux, trois, oh lala, oh lala j'ai plein d'idées..."
Version 2 of the macro to extract the surface layer of 3D volumetric images
Macros for processing multiple files in a directory
Collection of macros for image processing in Fiji/ImageJ
Segment colon crypts from z-projection of SHG images of fibrillar collagen and Quantify fibrosis by analyzing the spatial organization of the crypts.
Distributing macros for scientific skeletal muscle imaging in ImageJ and Fiji.