Python code that I used in my blog posts on the Zarr file format.

Quantify the colonization behaviours on surfaces for different bacterial strains

napari within the mikro environment

4DN-BINA-OME-QUAREP Microscopy Glossary

convolutional-relational neural network architectures for segmentation of electron micrographs

Code used to generate the figures for the "Neutrophils Actively Swell to Potentiate Migration" paper

Example workflows for image processing, segmentation and analysis. Stitching and alignment functions also implemented.

This repository contains Python software that was created to explore file system directories and automatically collect the names of image data files to be annotated with experimental and sample preparation metadata and imported into OMERO.

Repository for an automated microscopy image analysis pipeline (CryptoClassifier), using ImageJ.

This repository contains software that was developed for the management of bioimage data generated at UMass Chan Medical School and as part of the Canada Bioimaging RDM initiative.

This repository contains sofware that was created for the automatic image data management of image data generated at UMass Chan Medical School and as part of the Canada Bioimaging RDM initiative.

This repository contains software that was developed to add metadata annotations to bioimage data before importing it into OMERO

This is a converter written in Java that translates an XSD microscopy metadata schema into JSON

This is a limited-functionality, beta - implementation of the integration of Micro-Meta App in the OMERO.web client

#GliaMorph - Toolkit to Process and Analyse Müller Glia Morphology

🧪 Reproducing the concept of Confocal Laser Scanning Microscope. Using Arduino and easily found materials. Generating images in Grayscale just for fun.

Nuclear Morphology and Chromatin Organization Features

This is the React implementation of Micro-Meta App, Microscopy Metadata for the real world!

Scientific software for analysis of confluent cell dynamics.