Deep Zoom Plate Viewer for microscopy images

The 4DN + BINA Tiered System of Microscopy Metadata Guidelines was developed by the 4DN Imaging Standards Working Group in collaboration with the BINA Data Management and Quality Control Working Group (https://www.bioimagingna.org/qc-dm-wg) for documenting microscopy experiments and assessing the quality of image data.

#ZVQ - Zebrafish Vascular Quantification - https://doi.org/10.1242/dev.199720

Electron wrapped, stand-alone version of Micro-Meta App, microscopy metadata for the real world!

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

Scientific software for analysis of confluent cell dynamics.

#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.

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

Nuclear Morphology and Chromatin Organization Features

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

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.

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

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

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.

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

napari within the mikro environment

Quantify the colonization behaviours on surfaces for different bacterial strains