Stars
This repository is a thin wrapper around InstanSeg (https://github.com/instanseg), developed by Goldsborough, T. et al. (2024) for Fiji, making the model runnable easily from the Fiji GUI.
Tiled processing of arbitrarily large images — any image, any function.
Official code for "Deep self-learning enables fast, high-fidelity isotropic resolution restoration for volumetric fluorescence microscopy"
Awesome custom widgets made for QT Desktop Applications. Simplify your UI development process. These widgets can be used in QT Designer then imported to PySide code.
CSC Matlab installation for MIB
Microscopy Image Browser version 2 is a package for image processing, segmentation and visualization of multi-dimensional (2D-4D) microscopy datasets
Browse, share, and publish OME-Zarr data
A beginner's guide to ome-zarr IO, viewing and interacting
Toolbox for general image data handling and registration
Efficient, parallel, and distributed implementation of image analysis and segmentation functionality
An open-source Python toolkit for large-scale fluorescence microscopy data alignment and fusion.
Colocalisation analysis of multi-channel images
A Python-based tool for parallelized conversion of image datasets from various formats to OME-Zarr, with support for distributed processing and multi-dimensional concatenation.
Single-cell microscopy analysis platform built on OME-Zarr and SQLite that integrates Cellpose and napari for custom single-cell analysis workflows
So You Want To Do Image Analysis With Python
(NeurIPS 2022 CellSeg Challenge - 1st Winner) Open source code for "MEDIAR: Harmony of Data-Centric and Model-Centric for Multi-Modality Microscopy"
Python libraries for loading, running and packaging bioimage.io models
A Python package for utilities and classes related to the file I/O, dataset record keeping for image processing and computer vision.
Finite-Element Assisted Brain Assembly System for stitching & alignment of connectomics data