microscopy-data

WU-BIMAC/NBOMicroscopyMetadataSpecs

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.

ElisabethKugler/ZFVascularQuantification

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

Oftatkofta/cellocity

Scientific software for analysis of confluent cell dynamics.

WU-BIMAC/MicroMetaApp-Electron

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

WU-BIMAC/MicroMetaApp-React

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

ElisabethKugler/GliaMorph

#GliaMorph - Toolkit to Process and Analyse Müller Glia Morphology

melchisedech333/laser-scanning-microscopy

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

GVS-Lab/chrometrics

Nuclear Morphology and Chromatin Organization Features

WU-BIMAC/MicroMetaApp-Omero

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

WU-BIMAC/W-IDM_OmeroImporter

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.

WU-BIMAC/4DNMetadataSchemaXSD2JSONConverter

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

WU-BIMAC/W-IDM_OmeroImporterPy

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

Jack-Gregory-Bioinformatics/CryptoClassifier

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

WU-BIMAC/W-IDM_OmeroDataWriter

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.

clintyr/bio-image-analysis

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

WU-BIMAC/W-IDM_OmeroImporterExcelHelperPy

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.

another-parsec/single_molecule_work

arkitektio-apps/mikro-napari

napari within the mikro environment

georgeglidden/relenc

convolutional-relational neural network architectures for segmentation of electron micrographs

sanger-matteo/Analyse-Cell-Colonization-Patterns

Quantify the colonization behaviours on surfaces for different bacterial strains

SchmChris/Postcards-2024

NFDI4BIOIMAGE data management illustrations by Henning Falk (2024)

tlnagy/Nagy_2023_SwellMigration

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

WU-BIMAC/NBO-Q_MicroscopyGlossary

4DN-BINA-OME-QUAREP Microscopy Glossary

FabrizioMusacchio/ZARR_tests

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

JeSandovalG/LateralDiffusionAnalysis_FCS

Python-based script used to analyze Fluorescence Correlation Spectroscopy (FCS) data for lateral diffusion coefficient measurements. Developed in the Biophysics laboratory at University of Los Andes, Colombia.

jsmithss/toccatr

Harmony high-content imaging data tools